Locus 5055

Sequence ID	2L_DroMel_CAF1
Location	14,486,443 – 14,486,547
Length	104
Max. P	0.986889

overview

Window 0

Location	14,486,443 – 14,486,547
Length	104
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.71
Mean single sequence MFE	-40.46
Consensus MFE	-30.38
Energy contribution	-33.02
Covariance contribution	2.64
Combinations/Pair	1.03
Mean z-score	-3.09
Structure conservation index	0.75
SVM decision value	2.06
SVM RNA-class probability	0.986889
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14486443 104 + 22407834
UUUAAUUGUCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAA----------UGCUCGGCCUUGGUCUCGUCCUUGGCAUUGGCAUC------GGC
......((((((......))((((((((((..((((((.(((((((...)))).))).))))))..----------)))..(((....)))..))))..)))...))))..------... ( -33.30)
>DroSec_CAF1 11063 110 + 1
UUUAAUUGUCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAAGUGCGUUCCGAGCUCGGCCUUGGUCUCGUCCUUGGCAUUGGCAU----------
......(((((((((((...)))((((((((.((((((.(((((((...)))).))).))))))..)))))))).))))...(((..((......))..)))...)))).---------- ( -42.00)
>DroSim_CAF1 2303 110 + 1
UUUAAUUGUCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAAGUGCGUUCCGAGCUCGGCCUUGGUCUCGUCCUUGGCAUUGGCAU----------
......(((((((((((...)))((((((((.((((((.(((((((...)))).))).))))))..)))))))).))))...(((..((......))..)))...)))).---------- ( -42.00)
>DroEre_CAF1 12261 120 + 1
UUUAAUUGCCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAAGUGCGUACCGAGCUUGGCCUUGGUCUCGUCCUUGCCAUUGGCAUUGGUGUUGCC
......(((((((((((...)))((((((((.((((((.(((((((...)))).))).))))))..)))))).)))))).((((...((......))..))))..))))........... ( -43.40)
>DroYak_CAF1 7201 120 + 1
UUUAAUUGUCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAAGUGCGUUCCGAGCUCGGCCUUCGUCUCGUCCUUGGCAUUGGAAUUGGCAUUGGC
..........((.((((((.(((((((((((.((((((.(((((((...)))).))).))))))..))))).))).))).))))....(((...(((........)))...)))..)))) ( -41.60)
>consensus
UUUAAUUGUCGCUCAGCUGCGCUGGACGCACGUGAUAAUUGCUCAUUUUAUGACGCAUUUAUCAAAGUGCGUUCCGAGCUCGGCCUUGGUCUCGUCCUUGGCAUUGGCAU_______G_C
......(((((((((((...)))((((((((.((((((.(((((((...)))).))).))))))..)))))))).))))...(((..((......))..)))...))))........... (-30.38 = -33.02 +   2.64)

alignment

secondary structure

dotplot

Window 1

Location	14,486,443 – 14,486,547
Length	104
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.71
Mean single sequence MFE	-35.90
Consensus MFE	-25.40
Energy contribution	-27.60
Covariance contribution	2.20
Combinations/Pair	1.00
Mean z-score	-2.74
Structure conservation index	0.71
SVM decision value	1.05
SVM RNA-class probability	0.906069
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14486443 104 - 22407834
GCC------GAUGCCAAUGCCAAGGACGAGACCAAGGCCGAGCA----------UUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGACAAUUAAA
...------(.(((((.(((...((((..(.(....).)..(((----------(.((((((.(((.((((...))))))).)))))).))))))))...)))..)).))).)....... ( -29.20)
>DroSec_CAF1 11063 110 - 1
----------AUGCCAAUGCCAAGGACGAGACCAAGGCCGAGCUCGGAACGCACUUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGACAAUUAAA
----------........(((..((......))..)))...(((((((.(((((..((((((.(((.((((...))))))).)))))).))))))))(((...))))))).......... ( -34.90)
>DroSim_CAF1 2303 110 - 1
----------AUGCCAAUGCCAAGGACGAGACCAAGGCCGAGCUCGGAACGCACUUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGACAAUUAAA
----------........(((..((......))..)))...(((((((.(((((..((((((.(((.((((...))))))).)))))).))))))))(((...))))))).......... ( -34.90)
>DroEre_CAF1 12261 120 - 1
GGCAACACCAAUGCCAAUGGCAAGGACGAGACCAAGGCCAAGCUCGGUACGCACUUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGGCAAUUAAA
(....).....((((..((((..((......))...)))).((((((.((((((..((((((.(((.((((...))))))).)))))).))))))))(((...)))))))))))...... ( -44.70)
>DroYak_CAF1 7201 120 - 1
GCCAAUGCCAAUUCCAAUGCCAAGGACGAGACGAAGGCCGAGCUCGGAACGCACUUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGACAAUUAAA
((((.(((....(((........)))((.(.(....)))).(((.(((.(((((..((((((.(((.((((...))))))).)))))).))))))))))))))..)).)).......... ( -35.80)
>consensus
G_C_______AUGCCAAUGCCAAGGACGAGACCAAGGCCGAGCUCGGAACGCACUUUGAUAAAUGCGUCAUAAAAUGAGCAAUUAUCACGUGCGUCCAGCGCAGCUGAGCGACAAUUAAA
...........(((((.(((...((.(........).))..(((.((.((((((..((((((.(((.((((...))))))).)))))).))))))))))))))..)).)))......... (-25.40 = -27.60 +   2.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:45 2006