Locus 805

Sequence ID	3R_DroMel_CAF1
Location	2,734,184 – 2,734,341
Length	157
Max. P	0.999130

overview

Window 5

Location	2,734,184 – 2,734,304
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	97.33
Mean single sequence MFE	-30.13
Consensus MFE	-27.50
Energy contribution	-27.62
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-0.97
Structure conservation index	0.91
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2734184 120 + 27905053
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUGUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGAGACGGCAUCCCCGAGGACUGCGAGUU
...(((...((((((((............))))))))(((((.........))))).)))........((((.(((((((.(((((.(...(....).).)))))...))).)))))))) ( -30.90)
>DroPse_CAF1 29815 120 + 1
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUAUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGUGACGGCAUCCCCGAGGAUUGCGAAUU
..((.((..((((((((............)))))))).))..))...........................(((((((((.(((((.(...(....).).)))))...))).)))))).. ( -27.50)
>DroGri_CAF1 48057 120 + 1
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUGUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGUGACGGCAUCCCUGAGGAUUGCGAACU
...(((...((((((((............))))))))(((((.........))))).)))...........(((((((((((((((.(...(....).).))))))..))).)))))).. ( -31.90)
>DroWil_CAF1 21255 120 + 1
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUGUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGGGACGGCAUCCCUGAGGAUUGCGAAUU
...(((...((((((((............))))))))(((((.........))))).)))...........(((((((((((((((.(...(....).).))))))..))).)))))).. ( -32.00)
>DroAna_CAF1 9820 119 + 1
AAGAAGAAAAAUUCCACUUAAUACGU-UCGUGGAAUUGUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGUGACGGCAUCCCCGAGGAUUGCGAGUU
...(((...((((((((.........-..))))))))(((((.........))))).)))........((((.(((((((.(((((.(...(....).).)))))...))).)))))))) ( -31.00)
>DroPer_CAF1 28877 120 + 1
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUAUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGUGACGGCAUCCCCGAGGAUUGCGAAUU
..((.((..((((((((............)))))))).))..))...........................(((((((((.(((((.(...(....).).)))))...))).)))))).. ( -27.50)
>consensus
AAGAAGAAAAAUUCCACUUAAUACGUUUCGUGGAAUUGUCGAUCACUUUCCUUGACACUUACCAAACUGACUUCGCAUCCAGGGAUACAGUGGUGACGGCAUCCCCGAGGAUUGCGAAUU
...(((...((((((((............))))))))(((((.........))))).)))...........(((((((((.(((((.(.((....)).).)))))...))).)))))).. (-27.50 = -27.62 +   0.11)

alignment

secondary structure

dotplot

Window 6

Location	2,734,184 – 2,734,304
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	97.33
Mean single sequence MFE	-35.13
Consensus MFE	-35.15
Energy contribution	-34.93
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.66
Structure conservation index	1.00
SVM decision value	3.39
SVM RNA-class probability	0.999130
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2734184 120 - 27905053
AACUCGCAGUCCUCGGGGAUGCCGUCUCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGACAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
...((((..(((((((((((((.((....)).)))))))))(((((....((.....))...))))).))))..))))..((.((((((((............))))))))..))..... ( -35.30)
>DroPse_CAF1 29815 120 - 1
AAUUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGAUAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
...((((..(((((((((((((.((....)).)))))))))(((((....((.....))...))))).))))..))))..((.((((((((............))))))))..))..... ( -35.20)
>DroGri_CAF1 48057 120 - 1
AGUUCGCAAUCCUCAGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGACAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
.(.((((..(((((((((((((.((....)).)))))))))(((((....((.....))...))))).))))..)))).)((.((((((((............))))))))..))..... ( -35.50)
>DroWil_CAF1 21255 120 - 1
AAUUCGCAAUCCUCAGGGAUGCCGUCCCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGACAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
..((((((.(((..((((((((.((....)).)))))))))))))))))(((..(((((......)))))((......)))))((((((((............))))))))......... ( -35.30)
>DroAna_CAF1 9820 119 - 1
AACUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGACAAUUCCACGA-ACGUAUUAAGUGGAAUUUUUCUUCUU
...(((((.(((..((((((((.((....)).)))))))))))))))).(((..(((((......)))))((......)))))((((((((..-.........))))))))......... ( -34.30)
>DroPer_CAF1 28877 120 - 1
AAUUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGAUAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
...((((..(((((((((((((.((....)).)))))))))(((((....((.....))...))))).))))..))))..((.((((((((............))))))))..))..... ( -35.20)
>consensus
AAUUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUCGACAAUUCCACGAAACGUAUUAAGUGGAAUUUUUCUUCUU
...((((..(((((((((((((.((....)).)))))))))(((((....((.....))...))))).))))..))))..((.((((((((............))))))))..))..... (-35.15 = -34.93 +  -0.22)

alignment

secondary structure

dotplot

Window 7

Location	2,734,224 – 2,734,341
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	91.81
Mean single sequence MFE	-37.44
Consensus MFE	-32.74
Energy contribution	-32.38
Covariance contribution	-0.36
Combinations/Pair	1.09
Mean z-score	-2.07
Structure conservation index	0.87
SVM decision value	1.41
SVM RNA-class probability	0.950980
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2734224 117 - 27905053
ACAUC---CUGGCCAACACACGCCUCCUUCCCAAAACCCGAACUCGCAGUCCUCGGGGAUGCCGUCUCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
..(((---(((((........)))(((((..((....(((((((((((.(((..((((((((.((....)).)))))))))))))))).....))))))....))..))))).)).))). ( -39.10)
>DroVir_CAF1 49555 117 - 1
ACAUC---CCGGACAACAUACACCGCCAUCCCAAAAUCCGAGUUCGCAAUCCUCAGGGAUGCCGUCUCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
...((---(..((((...............(((((....((.((((((.(((..((((((((.((....)).))))))))))))))))).))..)))))....))))..)))........ ( -37.31)
>DroPse_CAF1 29855 120 - 1
CCAUUUAUCGGGCCAACAUACACCGCCAUCCCAAAACCCGAAUUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
.((((((((.(((...........)))......((((..((.((((((.(((..((((((((.((....)).))))))))))))))))).)).))))))))))))............... ( -36.30)
>DroWil_CAF1 21295 117 - 1
ACAUC---CAGGACAACACACACCGCCAUCCCAAAAUCCGAAUUCGCAAUCCUCAGGGAUGCCGUCCCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
...((---(..((((...............(((((....((.((((((.(((..((((((((.((....)).))))))))))))))))).))..)))))....))))..)))........ ( -35.11)
>DroMoj_CAF1 51410 117 - 1
ACAUC---CCGGACAGCAUACGCCUCCAUCCCAAAAUCCGAGUUCGCAGUCCUCAGGGAUGCCGUCUCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
...((---(..((((((....)).......(((((....((.((((((....((((((((((.((....)).)))))))))).)))))).))..)))))....))))..)))........ ( -40.50)
>DroPer_CAF1 28917 120 - 1
CCAUUUAUCGGGCCAACAUACACCGCCAUCCCAAAACCCGAAUUCGCAAUCCUCGGGGAUGCCGUCACCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
.((((((((.(((...........)))......((((..((.((((((.(((..((((((((.((....)).))))))))))))))))).)).))))))))))))............... ( -36.30)
>consensus
ACAUC___CCGGACAACAUACACCGCCAUCCCAAAACCCGAAUUCGCAAUCCUCAGGGAUGCCGUCUCCACUGUAUCCCUGGAUGCGAAGUCAGUUUGGUAAGUGUCAAGGAAAGUGAUC
................(((...((..(((.(((((....((.(((((.((((..((((((((.((....)).))))))))))))))))).))..)))))...)))....))...)))... (-32.74 = -32.38 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:39 2006