Locus 1774

Sequence ID	X_DroMel_CAF1
Location	4,890,313 – 4,890,445
Length	132
Max. P	0.772969

overview

Window 0

Location	4,890,313 – 4,890,412
Length	99
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	86.51
Mean single sequence MFE	-28.21
Consensus MFE	-21.02
Energy contribution	-21.47
Covariance contribution	0.45
Combinations/Pair	1.19
Mean z-score	-2.35
Structure conservation index	0.75
SVM decision value	-0.05
SVM RNA-class probability	0.506588
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4890313 99 + 22224390
------------ACCACCACAAUGGGCUGGCUGGCUGGCUAUCUGCUUCUU-----GCUUCACUUGAAGCAUUAUUUUAGCGAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
------------.(((......)))((((((.((((.((((.........(-----(((((....))))))......)))).)))))))((((....)))).....)))....... ( -33.16)
>DroSec_CAF1 41489 96 + 1
------------ACCACCACAAUGGGCUGGCUGGCU---UCUCCGCUUCUU-----ACUUCACUUGAAGCAUUAUUUUAGCGAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
------------.......((((.(((.((((.(((---.....(((((..-----.........)))))........))).)))))))((((....)))).)))).......... ( -25.62)
>DroSim_CAF1 42708 95 + 1
------------ACCACCACAAUGGGCUGGCUGGCU----AUCCGCUUCUU-----GCUUCACUUGAAGCAUUAUUUUAGCGAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
------------.......((((.(((.((((.(((----(.........(-----(((((....))))))......)))).)))))))((((....)))).)))).......... ( -29.66)
>DroEre_CAF1 44315 95 + 1
------------ACCACCACAAUGGGCUGGCUGACU----AUCUGCUUCUU-----GCUUCACUUGAAGCAUUAUUUUAGCGAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
------------.(((......)))((((((.((((----...((((...(-----(((((....)))))).......)))))))))))((((....)))).....)))....... ( -28.60)
>DroYak_CAF1 42296 95 + 1
------------ACCACCACAAUGGGCUGGCUGGCU----AUCUGCUUCUU-----GCUUCACUUGAAGCAUUAUUUUAGCAAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
------------.(((......)))((((((.((((----...((((...(-----(((((....)))))).......)))))))))))((((....)))).....)))....... ( -28.70)
>DroAna_CAF1 101116 105 + 1
UCUUCUUGCCCAUCUACCACUAUGGGCUA-----------UUCUGCUUCUUCUGCCACUUCACUUGAAGCAUUAUUUUAGCGACUCGCUGUCGAUGACGACAAUUGAGCAAAUAAA
.......((((((........))))))..-----------...((((((...((......))...))))))..........(.((((.(((((....)))))..)))))....... ( -23.50)
>consensus
____________ACCACCACAAUGGGCUGGCUGGCU____AUCUGCUUCUU_____GCUUCACUUGAAGCAUUAUUUUAGCGAGUCGCCGUCGAUGACGACAAUUGAGCAAAUAAA
.............(((......)))((((((.((((.......((((.........(((((....)))))........)))))))))))((((....)))).....)))....... (-21.02 = -21.47 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	4,890,340 – 4,890,445
Length	105
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	83.11
Mean single sequence MFE	-25.28
Consensus MFE	-18.29
Energy contribution	-18.02
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-2.32
Structure conservation index	0.72
SVM decision value	0.53
SVM RNA-class probability	0.772969
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4890340 105 - 22224390
UUUUUUUAUUACAACUUUU------UGUUG-GUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUCGCUAAAAUAAUGCUUCAAGUGAAGC-----AAGAAGCAGAUA
...........((((....------.))))-...........(((((((((..((((((((...)))))))).............((((((....)))))-----).).)))))))) ( -26.90)
>DroSec_CAF1 41513 97 - 1
--------UUACAACUCUU------UUUUG-GUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUCGCUAAAAUAAUGCUUCAAGUGAAGU-----AAGAAGCGGAGA
--------..........(------(((((-.((((((.(((((((((.....((((((((...))))))))...((.........))..))))))))))-----))))).)))))) ( -26.80)
>DroSim_CAF1 42732 97 - 1
--------UUACAACUCUU------UUUUGGGUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUCGCUAAAAUAAUGCUUCAAGUGAAGC-----AAGAAGCGGAU-
--------....(((((..------....))))).........((((((((..((((((((...)))))))).............((((((....)))))-----).).)))))))- ( -24.60)
>DroEre_CAF1 44339 96 - 1
--------CUACUACCUUU------UUUUG-GUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUCGCUAAAAUAAUGCUUCAAGUGAAGC-----AAGAAGCAGAU-
--------...........------.((((-.(((((....((((((((....((((((((...))))))))...))..)))))).(((((....)))))-----))))).)))).- ( -24.30)
>DroYak_CAF1 42320 100 - 1
--------UU--AACCUUUUUUUUAUUUUG-GUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUUGCUAAAAUAAUGCUUCAAGUGAAGC-----AAGAAGCAGAU-
--------..--..............((((-.(((((....((((((...(((((((((((...)))))))).)))...)))))).(((((....)))))-----))))).)))).- ( -26.30)
>DroAna_CAF1 101145 100 - 1
-UGUUUUAG--------UG------UUGUG-UUUUUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACAGCGAGUCGCUAAAAUAAUGCUUCAAGUGAAGUGGCAGAAGAAGCAGAA-
-((((((((--------((------.....-................((((..((((((....)))))).)))))))))))))).((((((...((......))...))))))...- ( -22.79)
>consensus
________UUACAACUUUU______UUUUG_GUUCUUAUCUUUAUUUGCUCAAUUGUCGUCAUCGACGGCGACUCGCUAAAAUAAUGCUUCAAGUGAAGC_____AAGAAGCAGAU_
............................................(((((((..((((((((...))))))))..............(((((....))))).......).)))))).. (-18.29 = -18.02 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:36 2006