Locus 5710

Sequence ID	3R_DroMel_CAF1
Location	14,934,080 – 14,934,195
Length	115
Max. P	0.997523

overview

Window 3

Location	14,934,080 – 14,934,195
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.75
Mean single sequence MFE	-27.62
Consensus MFE	-23.67
Energy contribution	-24.11
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.29
Structure conservation index	0.86
SVM decision value	0.21
SVM RNA-class probability	0.635696
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14934080 115 + 27905053
-----ACUUGUUCUCUAAGUGCACAACCCAUAUUUAGGAUGCACACACGUGCUGCAUGAUCAUGUGAUUUAUGAGCGCACUCCCCAAAACGAUAAUAACAACUAGGGAUGGUCAUAAAGA
-----(((...((((((.(((((...((........)).)))))....(((((.(((((((....)).))))))))))........................)))))).)))........ ( -24.80)
>DroSec_CAF1 63974 120 + 1
CAAGUACUUUUUCUCUAAGUGCACAACCCAUAUCUAGGAUGCACACACGUGCUGCAUGAUCAUGUGAUUUAUGAGCGCACUCCCCAAAACGAUAAUAACAACUGGGGAUGGUCAUAAAGA
......((((....(((.(((((...((........)).)))))....(((((.(((((((....)).))))))))))..((((((................)))))))))....)))). ( -29.09)
>DroSim_CAF1 62644 120 + 1
CAAGUAUUUUUUCUCUAAGUGCACAACCCAUAUCUAGGAUGCACACACGUGCUGCAUGAUCAUGUGAUUUAUGAGCGCACUCCCCAAAACGAUAAUGACAACUGGGGAUGGUCAUAAAGA
..................(((((...((........)).))))).((((((.........)))))).(((((((.((...((((((................)))))))).))))))).. ( -27.29)
>DroEre_CAF1 60500 120 + 1
CAAAUAUAUUUUCUCUAAGUGCACAACCCAUAUAUAGGAUGCACACACGUGCUGCAUGAUCAUGUGAUUUAUGACCGCACUCCCCAAAACGGUAAUAACAACUGGGGAUUGUCAUAAAGA
..................(((((...((........)).))))).((((((.........)))))).((((((((.....((((((.....((....))...))))))..)))))))).. ( -27.60)
>DroYak_CAF1 67350 120 + 1
CAACUACAUUUUCUCUAAGUGCACAGCCCAUAUAUAGGAUGCACACACGUGCUGCAUGAUCGUGUGAUUUAUGACCGCACUCCCCAAAACGGUAAUAACUACUGGGGAUUGUCAUAAAGA
..................(((((...((........)).)))))(((((..(.....)..)))))..((((((((.....((((((....(((....)))..))))))..)))))))).. ( -29.30)
>consensus
CAAGUACUUUUUCUCUAAGUGCACAACCCAUAUAUAGGAUGCACACACGUGCUGCAUGAUCAUGUGAUUUAUGAGCGCACUCCCCAAAACGAUAAUAACAACUGGGGAUGGUCAUAAAGA
..................(((((...((........)).))))).((((((.........)))))).(((((((.((...((((((................)))))))).))))))).. (-23.67 = -24.11 +   0.44)

alignment

secondary structure

dotplot

Window 4

Location	14,934,080 – 14,934,195
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.75
Mean single sequence MFE	-34.06
Consensus MFE	-33.24
Energy contribution	-33.08
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.76
Structure conservation index	0.98
SVM decision value	2.88
SVM RNA-class probability	0.997523
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14934080 115 - 27905053
UCUUUAUGACCAUCCCUAGUUGUUAUUAUCGUUUUGGGGAGUGCGCUCAUAAAUCACAUGAUCAUGCAGCACGUGUGUGCAUCCUAAAUAUGGGUUGUGCACUUAGAGAACAAGU-----
((((((......(((((((.((.......))..)))))))((((((((((.......))))....)).))))..(((..((.((((....)))).))..))).))))))......----- ( -31.00)
>DroSec_CAF1 63974 120 - 1
UCUUUAUGACCAUCCCCAGUUGUUAUUAUCGUUUUGGGGAGUGCGCUCAUAAAUCACAUGAUCAUGCAGCACGUGUGUGCAUCCUAGAUAUGGGUUGUGCACUUAGAGAAAAAGUACUUG
((((((......(((((((.((.......))..)))))))((((((((((.......))))....)).))))..(((..((.((((....)))).))..))).))))))........... ( -34.10)
>DroSim_CAF1 62644 120 - 1
UCUUUAUGACCAUCCCCAGUUGUCAUUAUCGUUUUGGGGAGUGCGCUCAUAAAUCACAUGAUCAUGCAGCACGUGUGUGCAUCCUAGAUAUGGGUUGUGCACUUAGAGAAAAAAUACUUG
((((((......(((((((.((.......))..)))))))((((((((((.......))))....)).))))..(((..((.((((....)))).))..))).))))))........... ( -34.10)
>DroEre_CAF1 60500 120 - 1
UCUUUAUGACAAUCCCCAGUUGUUAUUACCGUUUUGGGGAGUGCGGUCAUAAAUCACAUGAUCAUGCAGCACGUGUGUGCAUCCUAUAUAUGGGUUGUGCACUUAGAGAAAAUAUAUUUG
((((((......(((((((..((....))....)))))))((((((((((.......))))))..(((((.((((((((.....)))))))).))))))))).))))))........... ( -35.70)
>DroYak_CAF1 67350 120 - 1
UCUUUAUGACAAUCCCCAGUAGUUAUUACCGUUUUGGGGAGUGCGGUCAUAAAUCACACGAUCAUGCAGCACGUGUGUGCAUCCUAUAUAUGGGCUGUGCACUUAGAGAAAAUGUAGUUG
((((((......(((((((..((....))....)))))))((((((((...........))))..(((((.((((((((.....)))))))).))))))))).))))))........... ( -35.40)
>consensus
UCUUUAUGACCAUCCCCAGUUGUUAUUAUCGUUUUGGGGAGUGCGCUCAUAAAUCACAUGAUCAUGCAGCACGUGUGUGCAUCCUAGAUAUGGGUUGUGCACUUAGAGAAAAAGUACUUG
((((((..((..(((((((..............)))))))((((...(((..(((....))).)))..))))))(((..((.((((....)))).))..))).))))))........... (-33.24 = -33.08 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:31 2006