Locus 595

Sequence ID 2R_DroMel_CAF1
Location 3,033,588 – 3,033,692
Length 104
Max. P 0.930770
window1074 window1075

overview

Window 4

Location 3,033,588 – 3,033,692
Length 104
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -42.77
Consensus MFE -29.52
Energy contribution -30.52
Covariance contribution 1.00
Combinations/Pair 1.19
Mean z-score -2.22
Structure conservation index 0.69
SVM decision value 1.21
SVM RNA-class probability 0.930770
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3033588 104 + 20766785
UGGUGCUGUUUGGCCCUUGUUUUGAUGCUGGGCUAUCGGGCGGCACUGCCUCAAGCGC---------ACAGCUUUGGGAAGGUGCCGCCCACAGGUGCAUUAUUGCAGUUGCU
..........((((((..((......)).))))))..((((((((((.(((.((((..---------...)))).)))..)))))))))).(((.((((....)))).))).. ( -48.90)
>DroPse_CAF1 10492 113 + 1
UGGUGCUGCCUUGCACUGGUCUUGGUGCUGGGCUAUCGGGCGGCGCUUCCACAAACUCGUUUAGAUAAAAGAUUCGAUGAGAUGCCGCCAAAAAACGUUCUACUGCAGUUGCU
...(((.((((.(((((......))))).)))).....(((((((......)...((((((..((........))))))))..))))))...............)))...... ( -33.70)
>DroSim_CAF1 7232 104 + 1
UGGUGCUGUUUGGCUCUUGUUUUGAUGCUGGGCUAUCGGGCGGCACUGCCUCAAGCGC---------ACAGCUUUGGGAAGGUGCCGCCCACAGGUGCAUUAUUGCAGUUGCU
.((((..(((..((((.......)).))..)))))))((((((((((.(((.((((..---------...)))).)))..)))))))))).(((.((((....)))).))).. ( -47.80)
>DroEre_CAF1 7680 104 + 1
UGGUGCUGUUUGGCACUGGUUUUGGUGCUGGGCUACCGGGCGGCGCUGCCUCAAACGA---------ACACCUUUGGGAAAAUGCCGCCCACAGGUGCAUUAUUGCAGUUACU
.((((..(((..(((((......)))))..)))))))((((((((.(..((((((...---------.....))))))..).))))))))..((.((((....)))).))... ( -43.20)
>DroYak_CAF1 7356 104 + 1
UGGUGCUGCUUGGCACUGGUUUUGGUGCUGGGCUAUCGGGCGGCGCUGCCGCCAACGC---------ACAGCUUUGGGAAGGUGCCGCCCACAAGUGUAUUAUUGCAGUUACU
.((((..(((..(((((......)))))..)))))))((((((((((..(.((((.((---------...)).)))))..))))))))))..((.((((....)))).))... ( -48.00)
>DroPer_CAF1 10274 113 + 1
UGGUGCUGCCUUGCACUGGUCUUGGUGCUGGGCUAUCGGGCGGCGCUUCCACAAACUCGUUUAGAUAAAAGAUUCGAUGAGAUGCCGCCAAAAAGCGUUCUACUGCAGUUGCU
....(((((((.(((((......))))).)))).....(((((((......)...((((((..((........))))))))..))))))....)))........((....)). ( -35.00)
>consensus
UGGUGCUGCUUGGCACUGGUUUUGGUGCUGGGCUAUCGGGCGGCGCUGCCUCAAACGC_________ACAGCUUUGGGAAGAUGCCGCCCACAAGUGCAUUAUUGCAGUUGCU
((((((.(((..(((((......)))))..)))....((((((((((.((..........................)).)).))))))))......))))))........... (-29.52 = -30.52 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,033,588 – 3,033,692
Length 104
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 79.65
Mean single sequence MFE -33.55
Consensus MFE -21.50
Energy contribution -20.78
Covariance contribution -0.72
Combinations/Pair 1.25
Mean z-score -1.55
Structure conservation index 0.64
SVM decision value 0.28
SVM RNA-class probability 0.666431
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3033588 104 - 20766785
AGCAACUGCAAUAAUGCACCUGUGGGCGGCACCUUCCCAAAGCUGU---------GCGCUUGAGGCAGUGCCGCCCGAUAGCCCAGCAUCAAAACAAGGGCCAAACAGCACCA
.((...((((....))))..((((((((((((...((..((((...---------..))))..))..)))))))))....((((.............))))...))))).... ( -38.72)
>DroPse_CAF1 10492 113 - 1
AGCAACUGCAGUAGAACGUUUUUUGGCGGCAUCUCAUCGAAUCUUUUAUCUAAACGAGUUUGUGGAAGCGCCGCCCGAUAGCCCAGCACCAAGACCAGUGCAAGGCAGCACCA
......(((...............((((((.(..((.((((.(((..........)))))))))..)..)))))).....(((..((((........))))..))).)))... ( -29.20)
>DroSim_CAF1 7232 104 - 1
AGCAACUGCAAUAAUGCACCUGUGGGCGGCACCUUCCCAAAGCUGU---------GCGCUUGAGGCAGUGCCGCCCGAUAGCCCAGCAUCAAAACAAGAGCCAAACAGCACCA
.((...((((....)))).(((((((((((((...((..((((...---------..))))..))..))))))))).))))....))............((......)).... ( -35.10)
>DroEre_CAF1 7680 104 - 1
AGUAACUGCAAUAAUGCACCUGUGGGCGGCAUUUUCCCAAAGGUGU---------UCGUUUGAGGCAGCGCCGCCCGGUAGCCCAGCACCAAAACCAGUGCCAAACAGCACCA
......(((......((((..(((((((((.....((((((.(...---------.).)))).))....)))))))(((.((...)))))...))..))))......)))... ( -32.50)
>DroYak_CAF1 7356 104 - 1
AGUAACUGCAAUAAUACACUUGUGGGCGGCACCUUCCCAAAGCUGU---------GCGUUGGCGGCAGCGCCGCCCGAUAGCCCAGCACCAAAACCAGUGCCAAGCAGCACCA
.....((((.............(((((.(((((((....)))..))---------))...((((((...)))))).....)))))((((........))))...))))..... ( -34.90)
>DroPer_CAF1 10274 113 - 1
AGCAACUGCAGUAGAACGCUUUUUGGCGGCAUCUCAUCGAAUCUUUUAUCUAAACGAGUUUGUGGAAGCGCCGCCCGAUAGCCCAGCACCAAGACCAGUGCAAGGCAGCACCA
.....((((........(((.((.((((((.(..((.((((.(((..........)))))))))..)..)))))).)).)))...((((........))))...))))..... ( -30.90)
>consensus
AGCAACUGCAAUAAUACACCUGUGGGCGGCACCUUCCCAAAGCUGU_________GCGUUUGAGGCAGCGCCGCCCGAUAGCCCAGCACCAAAACCAGUGCCAAACAGCACCA
......(((.............((((((((...........((............))(((......)))))))))))........((((........))))......)))... (-21.50 = -20.78 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:23 2006