Locus 3825

Sequence ID 2L_DroMel_CAF1
Location 11,158,216 – 11,158,311
Length 95
Max. P 0.996007
window6025 window6026

overview

Window 5

Location 11,158,216 – 11,158,311
Length 95
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 76.55
Mean single sequence MFE -38.59
Consensus MFE -23.65
Energy contribution -22.66
Covariance contribution -0.99
Combinations/Pair 1.28
Mean z-score -3.51
Structure conservation index 0.61
SVM decision value 2.64
SVM RNA-class probability 0.996007
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11158216 95 + 22407834
ACCUAAACCUGAAUC-----------GA---UUUUCGAUCCUUAUCCAGGUUGCAGGCCCGUUCGCGG--------CUAGUUCAAC--UUGAGUUUUGAACUGAGAUCGCGAACUGUGC
.(((.((((((.(((-----------(.---....)))).......))))))..)))...((((((((--------(((((((((.--.......))))))).)).))))))))..... ( -31.40)
>DroSec_CAF1 6539 95 + 1
ACCUAAACCUGGAUC-----------CA---UUGUCGAUCCUUAUCCAGGUUGCAGGUCCGUUCGCGG--------CUAGUUCAAC--UUGAGUUUUGAACUGAGGUCGCGAACUGUGC
((((.(((((((((.-----------..---............)))))))))..))))..((((((((--------(((((((((.--.......)))))))..))))))))))..... ( -38.26)
>DroSim_CAF1 6575 95 + 1
ACCUAAACCUGGAUC-----------CA---UUGUCGAUCCUAAUCCAGGUUGCAGGUCCGUUCGCGG--------CUAGUUCAAC--UUGAGUUUGGAACUGAGAUCGCGAACUGUGC
((((.(((((((((.-----------..---............)))))))))..))))..((((((((--------(((((((.((--....))...))))).)).))))))))..... ( -34.36)
>DroEre_CAF1 6525 95 + 1
ACCUAAACCUGGAUC-----------UG---UUUUCUAUCCUCAUCCAGGUUGCAGGCCUGUUCGCGG--------CCAGUCCAAC--UUGAGUUUUGAACUGAGUUCGCGAACUGUGC
.(((.(((((((((.-----------.(---.........)..)))))))))..)))...((((((((--------(((((.(((.--.......))).)))).).))))))))..... ( -32.50)
>DroYak_CAF1 6572 114 + 1
ACCCAAACCUGGAUUAUUUCGAUCCUUA---UUUUCGAUCCUUAUCCAGGUUGCAGGCCCGUUCGCGGUCUCCAGUCCAGUCCAAC--UGGAAUUUCGAACUGAGAUCGCGAACCGUGC
.....(((((((((....((((......---...)))).....)))))))))(((.(...((((((((((((.(((((((.....)--))))........))))))))))))))).))) ( -45.10)
>DroAna_CAF1 6266 106 + 1
ACCUAAGCCGGGGUCAU---GAUU--UGCUUUCUUGUAUCCUGACCCUGGCUGGAGGCUUGUUCGCGG--------GCAGUCCAACAUUGGAGCUGGGACUUGCCACCGCGGACUGUGC
.(((.(((((((((((.---(((.--.((......))))).)))))))))))..)))...((((((((--------.(((((((....)))).)))((.....)).))))))))..... ( -49.90)
>consensus
ACCUAAACCUGGAUC___________UA___UUUUCGAUCCUUAUCCAGGUUGCAGGCCCGUUCGCGG________CCAGUCCAAC__UUGAGUUUUGAACUGAGAUCGCGAACUGUGC
.(((.(((((((((.............................)))))))))..)))...((((((((.........((((.(..............).))))...))))))))..... (-23.65 = -22.66 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,158,216 – 11,158,311
Length 95
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 76.55
Mean single sequence MFE -39.25
Consensus MFE -26.83
Energy contribution -26.08
Covariance contribution -0.74
Combinations/Pair 1.28
Mean z-score -3.77
Structure conservation index 0.68
SVM decision value 2.31
SVM RNA-class probability 0.992165
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11158216 95 - 22407834
GCACAGUUCGCGAUCUCAGUUCAAAACUCAA--GUUGAACUAG--------CCGCGAACGGGCCUGCAACCUGGAUAAGGAUCGAAAA---UC-----------GAUUCAGGUUUAGGU
((...(((((((..((.(((((((.......--.)))))))))--------.)))))))..)).....((((((((..((((((....---.)-----------)))))..)))))))) ( -36.30)
>DroSec_CAF1 6539 95 - 1
GCACAGUUCGCGACCUCAGUUCAAAACUCAA--GUUGAACUAG--------CCGCGAACGGACCUGCAACCUGGAUAAGGAUCGACAA---UG-----------GAUCCAGGUUUAGGU
(((..(((((((..((.(((((((.......--.)))))))))--------.))))))).....))).((((((((..(((((.....---..-----------)))))..)))))))) ( -35.80)
>DroSim_CAF1 6575 95 - 1
GCACAGUUCGCGAUCUCAGUUCCAAACUCAA--GUUGAACUAG--------CCGCGAACGGACCUGCAACCUGGAUUAGGAUCGACAA---UG-----------GAUCCAGGUUUAGGU
.....(((((((..((.(((((..(((....--))))))))))--------.)))))))..(((((.((((((((((.(......)..---..-----------))))))))))))))) ( -35.30)
>DroEre_CAF1 6525 95 - 1
GCACAGUUCGCGAACUCAGUUCAAAACUCAA--GUUGGACUGG--------CCGCGAACAGGCCUGCAACCUGGAUGAGGAUAGAAAA---CA-----------GAUCCAGGUUUAGGU
.....(((((((...(((((((((.......--.)))))))))--------.)))))))..(((((.(((((((((..(.........---).-----------.)))))))))))))) ( -38.90)
>DroYak_CAF1 6572 114 - 1
GCACGGUUCGCGAUCUCAGUUCGAAAUUCCA--GUUGGACUGGACUGGAGACCGCGAACGGGCCUGCAACCUGGAUAAGGAUCGAAAA---UAAGGAUCGAAAUAAUCCAGGUUUGGGU
...(.(((((((.((((((((((....(((.--...))).)))))).)))).))))))).)(((((.(((((((((.(...((((...---......))))..).)))))))))))))) ( -45.90)
>DroAna_CAF1 6266 106 - 1
GCACAGUCCGCGGUGGCAAGUCCCAGCUCCAAUGUUGGACUGC--------CCGCGAACAAGCCUCCAGCCAGGGUCAGGAUACAAGAAAGCA--AAUC---AUGACCCCGGCUUAGGU
.....((.(((((..(((.((((.(((......))))))))))--------))))).))..((((..((((.((((((.(((...........--.)))---.)))))).)))).)))) ( -43.30)
>consensus
GCACAGUUCGCGAUCUCAGUUCAAAACUCAA__GUUGAACUAG________CCGCGAACGGGCCUGCAACCUGGAUAAGGAUCGAAAA___UA___________GAUCCAGGUUUAGGU
.....(((((((....)(((((..(((......))))))))............))))))..(((((.(((((((((.............................)))))))))))))) (-26.83 = -26.08 +  -0.74)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:19 2006