Locus 2345

Sequence ID	2R_DroMel_CAF1
Location	8,554,709 – 8,554,823
Length	114
Max. P	0.594733

overview

Window 7

Location	8,554,709 – 8,554,823
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.74
Mean single sequence MFE	-30.82
Consensus MFE	-27.96
Energy contribution	-27.80
Covariance contribution	-0.16
Combinations/Pair	1.07
Mean z-score	-1.10
Structure conservation index	0.91
SVM decision value	-0.04
SVM RNA-class probability	0.514634
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8554709 114 + 20766785
UGAAAUUUUCCGCGUUUUUCGAGCAAACGCUCUCCGAAUUCGAGCGCUCUCGCUUUGAUUUCGAAAUCUCACACACACAACAACCGGCUAAAAGUGCGGCGAAUUC------GCUGUGAU
....((((((((.(((....((((....))))..((((.(((((((....))).)))).))))..................))))))...)))))((((((....)------)))))... ( -28.20)
>DroSec_CAF1 30327 114 + 1
UGAAAUUUUCCGCGUUUUUCGAGCAAACGCUCUCCGAAUUCGAGCGCUCUCGCUUUGAUUUCGAAAUCUCACGCACACAACAACCGGCUAAAAGCGCGGCGAAUUC------GCUGUGUU
...........((((.((((((((....))))...(((.(((((((....))).)))).)))))))....))))..................(((((((((....)------)))))))) ( -33.70)
>DroSim_CAF1 33913 114 + 1
UGAAAUUUUCCGCGUUUUUCGAGCAAACGCUCUCCGAAUUCGAGCGCUCUCGCUUUGAUUUCGAAAUCUCACACACACAACAACCGGCUAAAAGUGCGGCGAAUUC------GCUGUGAU
....((((((((.(((....((((....))))..((((.(((((((....))).)))).))))..................))))))...)))))((((((....)------)))))... ( -28.20)
>DroEre_CAF1 19218 120 + 1
UGAAAUUUUCCGCGUUUUUCGAGCAAACGCUCUCCGAAUCCGUGCGCUCUCGCUUUGGUUUCGAAAUCUCACACACACAACAGCCGGCUAAAAGCGCGGCGAAUUCGCUUUCGCUGUGAU
.........(((.(((....((((....))))..((((.(((.(((....)))..))).))))..................)))))).......(((((((((......))))))))).. ( -32.40)
>DroYak_CAF1 33566 120 + 1
UGAAAUUUUCCGCGUUUUUCGAGCAAAUGCUCUCCGAAUUCGUGCGCUCUCGCUUUGAUUUCGAAAUCUCACACACACAACAGCCGGCUAAAAGCGCGGCGAAUUCGCUUUCGCUGUGAU
.........(((.(((....((((....))))..((((.(((.(((....)))..))).))))..................)))))).......(((((((((......))))))))).. ( -31.60)
>consensus
UGAAAUUUUCCGCGUUUUUCGAGCAAACGCUCUCCGAAUUCGAGCGCUCUCGCUUUGAUUUCGAAAUCUCACACACACAACAACCGGCUAAAAGCGCGGCGAAUUC______GCUGUGAU
...(((((.((((((((((.((((....))))..((((.(((((((....))).)))).))))..........................)))))))))).)))))............... (-27.96 = -27.80 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	8,554,709 – 8,554,823
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.74
Mean single sequence MFE	-36.08
Consensus MFE	-30.54
Energy contribution	-30.22
Covariance contribution	-0.32
Combinations/Pair	1.09
Mean z-score	-1.30
Structure conservation index	0.85
SVM decision value	0.12
SVM RNA-class probability	0.594733
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8554709 114 - 20766785
AUCACAGC------GAAUUCGCCGCACUUUUAGCCGGUUGUUGUGUGUGUGAGAUUUCGAAAUCAAAGCGAGAGCGCUCGAAUUCGGAGAGCGUUUGCUCGAAAAACGCGGAAAAUUUCA
.((...((------(..((((((((((...(((....)))..))))).))))).((((((...((((((....))((((.........)))).)))).))))))..))).))........ ( -32.00)
>DroSec_CAF1 30327 114 - 1
AACACAGC------GAAUUCGCCGCGCUUUUAGCCGGUUGUUGUGUGCGUGAGAUUUCGAAAUCAAAGCGAGAGCGCUCGAAUUCGGAGAGCGUUUGCUCGAAAAACGCGGAAAAUUUCA
.(((((((------(.....((((.((.....))))))))))))))((((....((((((...((((((....))((((.........)))).)))).)))))).))))........... ( -36.90)
>DroSim_CAF1 33913 114 - 1
AUCACAGC------GAAUUCGCCGCACUUUUAGCCGGUUGUUGUGUGUGUGAGAUUUCGAAAUCAAAGCGAGAGCGCUCGAAUUCGGAGAGCGUUUGCUCGAAAAACGCGGAAAAUUUCA
.((...((------(..((((((((((...(((....)))..))))).))))).((((((...((((((....))((((.........)))).)))).))))))..))).))........ ( -32.00)
>DroEre_CAF1 19218 120 - 1
AUCACAGCGAAAGCGAAUUCGCCGCGCUUUUAGCCGGCUGUUGUGUGUGUGAGAUUUCGAAACCAAAGCGAGAGCGCACGGAUUCGGAGAGCGUUUGCUCGAAAAACGCGGAAAAUUUCA
.(((((((....))......((((.((.....)))))).........)))))..(((((((.((...((....))....)).))))))).((((((.......))))))........... ( -39.30)
>DroYak_CAF1 33566 120 - 1
AUCACAGCGAAAGCGAAUUCGCCGCGCUUUUAGCCGGCUGUUGUGUGUGUGAGAUUUCGAAAUCAAAGCGAGAGCGCACGAAUUCGGAGAGCAUUUGCUCGAAAAACGCGGAAAAUUUCA
.((...(((....(((((((((((.((.....))))))........(((((...(((((.........))))).))))))))))))..((((....))))......))).))........ ( -40.20)
>consensus
AUCACAGC______GAAUUCGCCGCGCUUUUAGCCGGUUGUUGUGUGUGUGAGAUUUCGAAAUCAAAGCGAGAGCGCUCGAAUUCGGAGAGCGUUUGCUCGAAAAACGCGGAAAAUUUCA
..((((((......(....)((((.((.....)))))).))))))(((((.....((((((.((...((....))....)).))))))((((....)))).....))))).......... (-30.54 = -30.22 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:31 2006