Locus 3179

Sequence ID	3R_DroMel_CAF1
Location	8,447,017 – 8,447,139
Length	122
Max. P	0.758007

overview

Window 9

Location	8,447,017 – 8,447,107
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	81.93
Mean single sequence MFE	-27.07
Consensus MFE	-19.55
Energy contribution	-19.88
Covariance contribution	0.33
Combinations/Pair	1.11
Mean z-score	-1.25
Structure conservation index	0.72
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8447017 90 + 27905053
CGCCGGCCGUGACGCAUCGAAUUAUCUGCGAUCAGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCUGCAGCGUCCAUUCGUCCGUCUGUC
....((((.(((((((..........)))).))).)))).......(((((((((((....))))))).(((..(....)..))))))). ( -30.70)
>DroPse_CAF1 110813 73 + 1
UGCUGGCAGUGACGCAUCGAAUUAUCUGCGAUCCGGGCUUAGCUAA-CA-GCAGGAUAAAUAUCCUGCAGCC--CAA-------------
.((((((.(.((((((..........)))).)))..)).))))...-..-(((((((....)))))))....--...------------- ( -22.20)
>DroSec_CAF1 107884 90 + 1
CGCCGGCCGAGACGCAUCGAAUUAUCUGCGAUCCGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCGGCAGCGUCCAUCCGUCCGUCUGUC
.(((..(((.((((((..........)))).)))))((((....)))).))).((((....))))(((((((..(....)..)).))))) ( -29.50)
>DroSim_CAF1 111056 90 + 1
CGCCGGCCGUGACGCAUCGAAUUAUCUGCGAUCCGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCUGCAGCGUCCAUCCGUCCGUCUGUC
.(.(((.((.(((((..........((((.....((......))..))))(((((((....))))))).)))))....)).))).).... ( -29.30)
>DroEre_CAF1 110689 85 + 1
UGCCUGCCGUGACGCAUCGAAUUAUCUGCGAUCCGGGCUUAACUAAGUA-GCAGGAUAAAUGUCCUGCAGCGUCCGUCCGUCGGUC----
.(((.((((.(((((((((.........))))....((((....)))).-(((((((....))))))).)))))))...)).))).---- ( -26.20)
>DroPer_CAF1 112627 73 + 1
UGCUGGCAGUGACGCAUCGAAUUAUCUGCGAUCCGGGCCUAGCUAA-CA-GCAGGAUAAAUAUCCUGCAGCC--CAA-------------
.((((((.(.((((((..........)))).)))..))).)))...-..-(((((((....)))))))....--...------------- ( -24.50)
>consensus
CGCCGGCCGUGACGCAUCGAAUUAUCUGCGAUCCGGGCUUAACUAAGCA_GCAGGAUAAAUGUCCUGCAGCGUCCAUCCGUCCGUC____
.((.((((..((((((..........)))).))..))))...........(((((((....))))))).))................... (-19.55 = -19.88 +   0.33)

alignment

secondary structure

dotplot

Window 0

Location	8,447,046 – 8,447,139
Length	93
Sequences	4
Columns	93
Reading direction	forward
Mean pairwise identity	91.94
Mean single sequence MFE	-33.70
Consensus MFE	-26.67
Energy contribution	-27.55
Covariance contribution	0.88
Combinations/Pair	1.08
Mean z-score	-1.93
Structure conservation index	0.79
SVM decision value	0.49
SVM RNA-class probability	0.758007
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8447046 93 + 27905053
GAUCAGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCUGCAGCGUCCAUUCGUCCGUCUGUCCAACUGUAUUUCCGUCCGGACGGGCGACUCCA
.....((((((....))))..(((((((....))))))).....))..(((((((((((..(............)..)))))))))))..... ( -34.90)
>DroSec_CAF1 107913 93 + 1
GAUCCGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCGGCAGCGUCCAUCCGUCCGUCUGUCCAACUGUAUUUCCGUCCGGACGGGCGACUCCA
.....((((((....))))..((.((((....)))).)).....))...((((((((((..(............)..))))))))))...... ( -29.20)
>DroSim_CAF1 111085 93 + 1
GAUCCGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCUGCAGCGUCCAUCCGUCCGUCUGUCCAACUGUAUUUCCGUCCGGACGGGCGACUCCA
.....((((((....))))..(((((((....))))))).....))...((((((((((..(............)..))))))))))...... ( -33.80)
>DroEre_CAF1 110718 88 + 1
GAUCCGGGCUUAACUAAGUA-GCAGGAUAAAUGUCCUGCAGCGUCCGUCCGUCGGUC----CAUCUGUAGUUCCGUCCGGGCGGGCAACUCCA
.....(((.........((.-(((((((....))))))).))(((((((((.(((..----(.......)..)))..)))))))))...))). ( -36.90)
>consensus
GAUCCGGGCUUAACUAAGCAGGCAGGAUAAAUGUCCUGCAGCGUCCAUCCGUCCGUCUGUCCAACUGUAUUUCCGUCCGGACGGGCGACUCCA
.....((((((....))))..(((((((....))))))).....))...((((((((((..(............)..))))))))))...... (-26.67 = -27.55 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:00 2006