Locus 720

Sequence ID	2L_DroMel_CAF1
Location	2,092,006 – 2,092,108
Length	102
Max. P	0.879563

overview

Window 0

Location	2,092,006 – 2,092,108
Length	102
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	80.83
Mean single sequence MFE	-28.05
Consensus MFE	-19.02
Energy contribution	-17.69
Covariance contribution	-1.33
Combinations/Pair	1.50
Mean z-score	-1.29
Structure conservation index	0.68
SVM decision value	-0.00
SVM RNA-class probability	0.532171
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2092006 102 + 22407834
-----GUCCAGUAAGGCCAGUAAGUCAGCUCAA--AAUGAGCACUUGUGUGGGAAAACUUGGCUACUCAAGAUCAACCGCCAAGUGGCGGCCGAAUAUGAAAACUCUUA
-----...((....((((.........((((..--...))))(((((.((((.....(((((....))))).....)))))))))...)))).....)).......... ( -29.80)
>DroPse_CAF1 146712 109 + 1
AUGAGGGCCUGGCCGGCCCGUAGUCCUGCCCGAAUAAUGAGCACUUAUUGAGGAAAUUUAUCCGAAACAAGAUCAACCACAGUUUUGCGGUCAAAUAUGAAAAGUCCUG
.((((((((.....)))))((((..(((......((((((....)))))).(((......)))................)))..))))..)))................ ( -22.80)
>DroSec_CAF1 109041 102 + 1
-----GGCCAGUAAGGCCAGUAAGUCAGCUCAA--AAUGAGCACUUGUGUGGGAAAACUUGGCUGCUCAAGAUCAACCGCCAAGUGGCGGCCGAAUAUGAAAACUCCUA
-----((((.....))))..(((((..((((..--...)))))))))..(((((...(((((....))))).((..(((((....)))))..))..........))))) ( -32.10)
>DroSim_CAF1 108913 102 + 1
-----GGCCAGUAAGGCCAGUAAGUCAGCUCAA--AAUGAGCACUUGUGUGGGAAAACUUGGCUGCUCAAGAUCAACCGCCAAGUGGCGGCCGAAUAUGAAAACUCUUA
-----((((.....))))(((...(((((((..--...)))).((((.(..(..........)..).)))).((..(((((....)))))..))...)))..))).... ( -31.70)
>DroEre_CAF1 111752 97 + 1
-----GGC-----AGGUCAGUAAGUCAGCUCAA--AAUGAGCACUUGUGUGGGAAAACUUGGCUGCUCAAGAUCAACCGCAAAGUGGCGGCCGAAUAUGAAAACUCUUA
-----(((-----..(((.........((((..--...))))((((.(((((.....(((((....))))).....)))))))))))).)))................. ( -26.60)
>DroYak_CAF1 113638 97 + 1
-----GGC-----AGGUCACUAAGUCAGUUCAA--AAUGAGCACUUGUGUGCAAGAACUUGGCUACUCAAGAUCAACCACAAAGUGGCGGCCGAAUAUGAAAACUCUUG
-----(((-----..((((((((((..((((..--...)))))))).((((...((.(((((....))))).))...)))).)))))).)))................. ( -25.30)
>consensus
_____GGCCAGUAAGGCCAGUAAGUCAGCUCAA__AAUGAGCACUUGUGUGGGAAAACUUGGCUACUCAAGAUCAACCGCAAAGUGGCGGCCGAAUAUGAAAACUCUUA
..............((((..(((((..(((((.....))))))))))..............((((((...............))))))))))................. (-19.02 = -17.69 +  -1.33)

alignment

secondary structure

dotplot

Window 1

Location	2,092,006 – 2,092,108
Length	102
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	80.83
Mean single sequence MFE	-31.05
Consensus MFE	-21.63
Energy contribution	-21.83
Covariance contribution	0.20
Combinations/Pair	1.32
Mean z-score	-2.17
Structure conservation index	0.70
SVM decision value	0.91
SVM RNA-class probability	0.879563
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2092006 102 - 22407834
UAAGAGUUUUCAUAUUCGGCCGCCACUUGGCGGUUGAUCUUGAGUAGCCAAGUUUUCCCACACAAGUGCUCAUU--UUGAGCUGACUUACUGGCCUUACUGGAC-----
........((((...(((((((((....)))))))))...))))...(((.((....(((...((((((((...--..))))..))))..)))....)))))..----- ( -31.40)
>DroPse_CAF1 146712 109 - 1
CAGGACUUUUCAUAUUUGACCGCAAAACUGUGGUUGAUCUUGUUUCGGAUAAAUUUCCUCAAUAAGUGCUCAUUAUUCGGGCAGGACUACGGGCCGGCCAGGCCCUCAU
.((..(.........(..((((((....))))))..).((((((..(((......)))..))))))(((((.......))))))..))..(((((.....))))).... ( -34.10)
>DroSec_CAF1 109041 102 - 1
UAGGAGUUUUCAUAUUCGGCCGCCACUUGGCGGUUGAUCUUGAGCAGCCAAGUUUUCCCACACAAGUGCUCAUU--UUGAGCUGACUUACUGGCCUUACUGGCC-----
...((((.((((...(((((((((....)))))))))...))))((((((((......(((....))).....)--))).))))))))...((((.....))))----- ( -35.80)
>DroSim_CAF1 108913 102 - 1
UAAGAGUUUUCAUAUUCGGCCGCCACUUGGCGGUUGAUCUUGAGCAGCCAAGUUUUCCCACACAAGUGCUCAUU--UUGAGCUGACUUACUGGCCUUACUGGCC-----
...((((.((((...(((((((((....)))))))))...))))((((((((......(((....))).....)--))).))))))))...((((.....))))----- ( -35.70)
>DroEre_CAF1 111752 97 - 1
UAAGAGUUUUCAUAUUCGGCCGCCACUUUGCGGUUGAUCUUGAGCAGCCAAGUUUUCCCACACAAGUGCUCAUU--UUGAGCUGACUUACUGACCU-----GCC-----
.........(((...((((((((......))))))))...)))((((...(((..........((((((((...--..))))..)))))))...))-----)).----- ( -25.70)
>DroYak_CAF1 113638 97 - 1
CAAGAGUUUUCAUAUUCGGCCGCCACUUUGUGGUUGAUCUUGAGUAGCCAAGUUCUUGCACACAAGUGCUCAUU--UUGAACUGACUUAGUGACCU-----GCC-----
...(((((((((...((((((((......))))))))...))))......(((((..((((....)))).....--..))))))))))........-----...----- ( -23.60)
>consensus
UAAGAGUUUUCAUAUUCGGCCGCCACUUGGCGGUUGAUCUUGAGCAGCCAAGUUUUCCCACACAAGUGCUCAUU__UUGAGCUGACUUACUGGCCUUACUGGCC_____
.....(((((((...(((((((((....)))))))))...)))).))).........(((...(((((((((.....)))))..))))..)))................ (-21.63 = -21.83 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:49 2006