Locus 7235

Sequence ID	X_DroMel_CAF1
Location	18,078,090 – 18,078,210
Length	120
Max. P	0.991291

overview

Window 0

Location	18,078,090 – 18,078,210
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.56
Mean single sequence MFE	-38.23
Consensus MFE	-32.71
Energy contribution	-33.27
Covariance contribution	0.56
Combinations/Pair	1.06
Mean z-score	-2.07
Structure conservation index	0.86
SVM decision value	0.14
SVM RNA-class probability	0.605024
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18078090 120 + 22224390
GAUCAGCUGGCCAAGGCCAUAAACACUAAUUGGUCGGUUAUCGGGAUAUUGGAAAGUUCUGCUUGAACGCAAUGCGAUGAUUAAUGCUCUACGAUCUUGGCCAACGAAAGUUGCUAGUGU
....(((.(((((((((((...........)))))((((((((...(((((....((((.....)))).)))))))))))))..............))))))(((....))))))..... ( -33.80)
>DroSec_CAF1 163 120 + 1
GAUCAGCUGGCCAAGGCCAUAAACACUAAUUGGGCGGUAAUCGAGAUAUUGGAAAGUUCUGCUUGAACGCGAUGUGAUGAUUAAUGCACUACGAUCUUGGCCAGCGAAAGUUGCUGGUGU
.((((((.(((((((((((...........)))(((.((((((..((((((....((((.....)))).))))))..)))))).))).......))))))))(((....))))))))).. ( -42.00)
>DroSim_CAF1 195 120 + 1
GAUCAGCUGGCCAAGGCCAUAAACACUAAUUGGGCGGUAAUCGAGAUAUUGGAAAGUUCUGCUUGAACGCGAUGUGAUGAUUAAUGCACUACGAUCUUGGCCAGCGAAAGUUGCUAGUGU
.....((((((((((((((...........)))(((.((((((..((((((....((((.....)))).))))))..)))))).))).......)))))))))))............... ( -38.90)
>consensus
GAUCAGCUGGCCAAGGCCAUAAACACUAAUUGGGCGGUAAUCGAGAUAUUGGAAAGUUCUGCUUGAACGCGAUGUGAUGAUUAAUGCACUACGAUCUUGGCCAGCGAAAGUUGCUAGUGU
....(((.(((((((((((...........)))(((.((((((..((((((....((((.....)))).))))))..)))))).))).......))))))))(((....))))))..... (-32.71 = -33.27 +   0.56)

alignment

secondary structure

dotplot

Window 1

Location	18,078,090 – 18,078,210
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-34.23
Consensus MFE	-33.82
Energy contribution	-33.60
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.87
Structure conservation index	0.99
SVM decision value	2.26
SVM RNA-class probability	0.991291
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18078090 120 - 22224390
ACACUAGCAACUUUCGUUGGCCAAGAUCGUAGAGCAUUAAUCAUCGCAUUGCGUUCAAGCAGAACUUUCCAAUAUCCCGAUAACCGACCAAUUAGUGUUUAUGGCCUUGGCCAGCUGAUC
...............((((((((((..((((((.(((((((..(((..((((......))))..........(((....)))..)))...)))))))))))))..))))))))))..... ( -34.50)
>DroSec_CAF1 163 120 - 1
ACACCAGCAACUUUCGCUGGCCAAGAUCGUAGUGCAUUAAUCAUCACAUCGCGUUCAAGCAGAACUUUCCAAUAUCUCGAUUACCGCCCAAUUAGUGUUUAUGGCCUUGGCCAGCUGAUC
...............((((((((((..(((((.((((((((...........((((.....))))............((.....))....)))))))))))))..))))))))))..... ( -34.10)
>DroSim_CAF1 195 120 - 1
ACACUAGCAACUUUCGCUGGCCAAGAUCGUAGUGCAUUAAUCAUCACAUCGCGUUCAAGCAGAACUUUCCAAUAUCUCGAUUACCGCCCAAUUAGUGUUUAUGGCCUUGGCCAGCUGAUC
...............((((((((((..(((((.((((((((...........((((.....))))............((.....))....)))))))))))))..))))))))))..... ( -34.10)
>consensus
ACACUAGCAACUUUCGCUGGCCAAGAUCGUAGUGCAUUAAUCAUCACAUCGCGUUCAAGCAGAACUUUCCAAUAUCUCGAUUACCGCCCAAUUAGUGUUUAUGGCCUUGGCCAGCUGAUC
...............((((((((((..(((((.((((((((...........((((.....))))............((.....))....)))))))))))))..))))))))))..... (-33.82 = -33.60 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:46 2006