Locus 2604

Sequence ID	2L_DroMel_CAF1
Location	7,205,481 – 7,205,595
Length	114
Max. P	0.952760

overview

Window 0

Location	7,205,481 – 7,205,595
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	98.77
Mean single sequence MFE	-37.42
Consensus MFE	-37.42
Energy contribution	-37.02
Covariance contribution	-0.40
Combinations/Pair	1.05
Mean z-score	-1.53
Structure conservation index	1.00
SVM decision value	1.40
SVM RNA-class probability	0.950208
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7205481 114 + 22407834
GAGCUGAGGGAAGUUUUCUUGGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUUUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
.(((((.((((((....((.(((.(((...((((((((((..((......))..)))...(((..(.....)..)))..)))).))).))).))).))...))))))))))).. ( -36.80)
>DroSec_CAF1 23086 114 + 1
GAGCUGAGGGAAGUUUUCUUGGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUCUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
.(((((.((((((....((.(((.(((...((((((((((..((......))..)))(..(((.((....)).)))..))))).))).))).))).))...))))))))))).. ( -37.40)
>DroSim_CAF1 36314 114 + 1
GAGCUGAGGGAAGUUUUCUUAGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUCUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
.(((((.((((((....((.(((.(((...((((((((((..((......))..)))(..(((.((....)).)))..))))).))).))).))).))...))))))))))).. ( -37.40)
>DroEre_CAF1 48400 114 + 1
GAGCUGAGGGAAGUUUUCUUAGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUCUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
.(((((.((((((....((.(((.(((...((((((((((..((......))..)))(..(((.((....)).)))..))))).))).))).))).))...))))))))))).. ( -37.40)
>DroYak_CAF1 38718 114 + 1
UAGCUGAGGGAAGUUUUCUUAGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUCUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
((((((.((((((....((.(((.(((...((((((((((..((......))..)))(..(((.((....)).)))..))))).))).))).))).))...)))))))))))). ( -38.10)
>consensus
GAGCUGAGGGAAGUUUUCUUAGCGAGAAAUUUGCACAAUGUGGAUAUGUCUCUGCGUGGAUUCUGGAAAACUUGAAGGCUGUGUCAACUCUGGCUUGGUCCCUUCCCCAGCUGA
.(((((.((((((....((.(((.(((...((((((((((..((......))..)))(..(((.((....)).)))..))))).))).))).))).))...))))))))))).. (-37.42 = -37.02 +  -0.40)

alignment

secondary structure

dotplot

Window 1

Location	7,205,481 – 7,205,595
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	98.77
Mean single sequence MFE	-29.40
Consensus MFE	-29.40
Energy contribution	-29.40
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.54
Structure conservation index	1.00
SVM decision value	1.43
SVM RNA-class probability	0.952760
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7205481 114 - 22407834
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAAAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCCAAGAAAACUUCCCUCAGCUC
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). ( -29.04)
>DroSec_CAF1 23086 114 - 1
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAGAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCCAAGAAAACUUCCCUCAGCUC
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). ( -29.04)
>DroSim_CAF1 36314 114 - 1
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAGAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCUAAGAAAACUUCCCUCAGCUC
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). ( -29.44)
>DroEre_CAF1 48400 114 - 1
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAGAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCUAAGAAAACUUCCCUCAGCUC
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). ( -29.44)
>DroYak_CAF1 38718 114 - 1
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAGAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCUAAGAAAACUUCCCUCAGCUA
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). ( -30.04)
>consensus
UCAGCUGGGGAAGGGACCAAGCCAGAGUUGACACAGCCUUCAAGUUUUCCAGAAUCCACGCAGAGACAUAUCCACAUUGUGCAAAUUUCUCGCUAAGAAAACUUCCCUCAGCUC
..((((((((((((((.......(((.((((........)))).))).......)))..((.((((.((...(((...)))...)).))))))........)))))).))))). (-29.40 = -29.40 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:44 2006