Locus 4591

Sequence ID	3R_DroMel_CAF1
Location	12,082,775 – 12,082,975
Length	200
Max. P	0.997667

overview

Window 0

Location	12,082,775 – 12,082,895
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-43.28
Consensus MFE	-36.46
Energy contribution	-36.82
Covariance contribution	0.36
Combinations/Pair	1.10
Mean z-score	-1.54
Structure conservation index	0.84
SVM decision value	0.58
SVM RNA-class probability	0.788971
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12082775 120 - 27905053
CACCUCUAACCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUUGGCGGGAGUGGCACCUCCGCUUGACUUUUCAUUGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
..((.(((((..((((((((((.....))))))))))((....)).))))).))((((((.....))))))........((((((((....))))))))..................... ( -40.00)
>DroSec_CAF1 19472 120 - 1
CACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGCAGUGGCACCUCCGCUUGACUUUUCAUUGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
......((((..((((((((((.....))))))))))((((.((((((((.(((((((((....((.....))....))))))))))))))))))).))...............)))).. ( -47.50)
>DroSim_CAF1 19660 120 - 1
CACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGACUUUUCAUUGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
......((((..((((((((((.....))))))))))((((.((((((((.(((((((((.....))))))((....))....))))))))))))).))...............)))).. ( -44.20)
>DroEre_CAF1 21566 120 - 1
CACCUCUAGCCUAGCGAUACUGUCCUCCGGGAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGGCUUUUUAGGGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
..(((..((((.((((.....((((....)))).(((((.(((((.....))))).))))).....)))).))))....)))(((((....)))))(((((...........)))))... ( -43.20)
>DroYak_CAF1 21951 120 - 1
CACCUCUAGUCUAGCGAUACUGUCCUCUGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGGCUUUUAAGGGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
..(((..((((.(((((((((.......))))))(((((.(((((.....))))).)))))......))).))))....)))(((((....)))))(((((...........)))))... ( -41.50)
>consensus
CACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGACUUUUCAUUGCUGCGACGGCGGUAGUAACUUCAUGACCAUUGCUAAU
...........(((((((...(((...(((....(((((.(((((.....))))).)))))....)))...))).....((((((((....))))))))............))))))).. (-36.46 = -36.82 +   0.36)

alignment

secondary structure

dotplot

Window 1

Location	12,082,815 – 12,082,935
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.25
Mean single sequence MFE	-48.90
Consensus MFE	-45.60
Energy contribution	-46.32
Covariance contribution	0.72
Combinations/Pair	1.08
Mean z-score	-1.93
Structure conservation index	0.93
SVM decision value	2.91
SVM RNA-class probability	0.997667
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12082815 120 - 27905053
CAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAACCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUUGGCGGGAGUGGCACCUCCGCUUGACUUUUCA
....((((.....))))....((((...(((.((((((.((((.........((((((((((.....))))))))))...(((((.....))))).)))))))))).)))...))))... ( -50.30)
>DroSec_CAF1 19512 120 - 1
CAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGCAGUGGCACCUCCGCUUGACUUUUCA
((((((.((((.(.(((...........(((((((((....))))).)))).((((((((((.....))))))))))......))).).))))))))))((......))........... ( -50.10)
>DroSim_CAF1 19700 120 - 1
CAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGACUUUUCA
....((((.....))))....((((...(((.((((((.((((.(((.(((.((((((((((.....))))))))))((....))....))).))))))))))))).)))...))))... ( -52.80)
>DroEre_CAF1 21606 120 - 1
CAUUGUUCGUCCAUGGCUGACAAGGAACGGCUGAGGUGACCACCUCUAGCCUAGCGAUACUGUCCUCCGGGAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGGCUUUUUA
......((((((.((.....)).)).))))..(((((....))))).((((.((((.....((((....)))).(((((.(((((.....))))).))))).....)))).))))..... ( -45.90)
>DroYak_CAF1 21991 120 - 1
CAUUGCUCGUCCAGGGCUGACAAGGAACGGCUGAGGUGACCACCUCUAGUCUAGCGAUACUGUCCUCUGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGGCUUUUAA
....((((.....))))....((((...(((.((((((.((((..........((((((((.......))))))))....(((((.....))))).)))))))))).)))...))))... ( -45.40)
>consensus
CAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCACUCGCUGUCGGCGGGAGUGGCACCUCCGCUUGACUUUUCA
....((((.....))))....((((...(((.((((((.((((.(((.(((.((((((((((.....))))))))))((....))....))).))))))))))))).)))...))))... (-45.60 = -46.32 +   0.72)

alignment

secondary structure

dotplot

Window 2

Location	12,082,855 – 12,082,975
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.00
Mean single sequence MFE	-54.08
Consensus MFE	-46.12
Energy contribution	-47.28
Covariance contribution	1.16
Combinations/Pair	1.11
Mean z-score	-2.05
Structure conservation index	0.85
SVM decision value	2.16
SVM RNA-class probability	0.989305
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12082855 120 - 27905053
GAUGCUGCGGGUCCUGCCACCGCGGAAGGAGUAGUGGGCCCAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAACCUGGCGAUACUGUCCUCCGGUAUCGCCGCA
..(((((.(((((((((....))(((..((((((((....)))))))).)))))))))).))......((..(((((....)))))...)).((((((((((.....))))))))))))) ( -55.00)
>DroSec_CAF1 19552 120 - 1
GAUGCAGCGGGUCCUGUCACCGCGGAAGGAGCAGUGGGCCCAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCA
..(((.(.((((((((......(....)((((((((....))))))))...)))))))).).......(((((((((....))))).)))).((((((((((.....))))))))))))) ( -61.10)
>DroSim_CAF1 19740 120 - 1
GAUGCAGCGGGUCCUGCCACCGCGGAAGGAGUAGUGGGCCCAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCA
..(((.(.(((((((((....))(((..((((((((....)))))))).)))))))))).).......(((((((((....))))).)))).((((((((((.....))))))))))))) ( -60.30)
>DroEre_CAF1 21646 120 - 1
GAUCCAGCAGGUCCUGCCACCGCCGAAGGAGUCGUGGGCGCAUUGUUCGUCCAUGGCUGACAAGGAACGGCUGAGGUGACCACCUCUAGCCUAGCGAUACUGUCCUCCGGGAUCGCCGCA
(((((.(.(((((((....((......))(((((((((((.......)))))))))))....))))..(((((((((....))))).))))............))).).)))))...... ( -46.90)
>DroYak_CAF1 22031 120 - 1
GAUCCAGCGGGUCCUGCCACCGCCGAUGGAGUCGUGGACGCAUUGCUCGUCCAGGGCUGACAAGGAACGGCUGAGGUGACCACCUCUAGUCUAGCGAUACUGUCCUCUGGUAUCGCCGCA
..(((.((((.........))))...((.((((.((((((.......)))))).))))..)).)))..(((((((((....))))).))))..((((((((.......)))))))).... ( -47.10)
>consensus
GAUGCAGCGGGUCCUGCCACCGCGGAAGGAGUAGUGGGCCCAUUGCUCGUCCAGGGCUCACAAGGAACGGCUGAGGUGACCACCUCUAGCCUGGCGAUACUGUCCUCCGGUAUCGCCGCA
......((((((((((......(....)((((((((....))))))))...)))))))).........(((((((((....))))).)))).((((((((((.....)))))))))))). (-46.12 = -47.28 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:54 2006