Locus 2275

Sequence ID 2R_DroMel_CAF1
Location 8,391,616 – 8,391,723
Length 107
Max. P 0.789147
window3734 window3735

overview

Window 4

Location 8,391,616 – 8,391,723
Length 107
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -28.97
Consensus MFE -18.47
Energy contribution -19.83
Covariance contribution 1.36
Combinations/Pair 1.05
Mean z-score -1.91
Structure conservation index 0.64
SVM decision value 0.58
SVM RNA-class probability 0.789147
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8391616 107 + 20766785
AGUUAAGAGGCGUCUUACGGCGUACACUUUCGCAGCAGGCCAUACAGAUCAUGGUCACGAUAAGAACGGCCUGAGUUUAAAAAUUGG--AUA-UAUUUGUAUUCAAUAUU
.......((((.((((((((((........)))....((((((.......)))))).)).)))))...))))..........(((((--(((-(....)))))))))... ( -28.10)
>DroGri_CAF1 6624 108 + 1
AAUUUAGCGGCGUUUUUCUGCGCACACUCUCGCAGCAGGCCAUGCAGAUCAUGGUCACAAUUAGCACGGCCUAAAAUCAGUAAAAAAAUACC-UAUU-UAAUACAACAGU
........((..((((((((((........))))).(((((.(((.(((..((....))))).))).)))))...........)))))..))-....-............ ( -23.00)
>DroSec_CAF1 2732 107 + 1
AGUUGAGAGGCGUCUUACGGCGUACACUUUCGCAGCAGGCCAUGCAGAUCAUGGUCACGAUAAGAACGACCUAAGUUUAAGAAUUGG--AUA-UAUUUGCAUUCAAUAUU
.(((((((((((((((((((((........)))....(((((((.....))))))).)).)))).))).)))..(((((.....)))--)).-........))))))... ( -27.20)
>DroSim_CAF1 2740 109 + 1
AGUUGAGAGGCGUCUUACGGCGUACACUUUCGCAGCAGGCCAUGCAGAUCAUGGUCACGAUAAGAACGACCUGAAUUUAGGAAUAGGGAGUA-UAUUCGUAUUCAAUAUU
.(((((((((((((((((((((........)))....(((((((.....))))))).)).)))).))).))).....((.(((((.......-))))).))))))))... ( -31.30)
>DroEre_CAF1 4804 108 + 1
AGUUGAGAGGCGUCUUACGGCGUACACUCUCGCAACAGGCCAUGCAUAUCAUGGUCACGAUAAGAACAGCCUGAUUUGACAAAAUAU--AGAUUUUUGUUAAUCAAUAUA
.(((((.((((.((((((((((........)))....(((((((.....))))))).)).)))))...))))...(((((((((...--....))))))))))))))... ( -34.70)
>DroYak_CAF1 2730 108 + 1
AGUUGAGAGGCGUCUUACGGCGUACACUUUCGCAGCAGGCCAUGCAUAUCAUGGUCACGAUAAGAACUGCCUGAUUUUUACAAUUUC--GGAUUAUUGUUAAUCAAUUUA
.......((((.((((((((((........)))....(((((((.....))))))).)).)))))...))))((((...(((((...--.....))))).))))...... ( -29.50)
>consensus
AGUUGAGAGGCGUCUUACGGCGUACACUUUCGCAGCAGGCCAUGCAGAUCAUGGUCACGAUAAGAACGGCCUGAAUUUAAAAAUUGG__AUA_UAUUGGUAUUCAAUAUU
.......((((.((((((((((........)))....(((((((.....))))))).)).)))))...))))...................................... (-18.47 = -19.83 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,391,616 – 8,391,723
Length 107
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.33
Mean single sequence MFE -26.48
Consensus MFE -17.93
Energy contribution -18.07
Covariance contribution 0.14
Combinations/Pair 1.10
Mean z-score -1.52
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.691346
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8391616 107 - 20766785
AAUAUUGAAUACAAAUA-UAU--CCAAUUUUUAAACUCAGGCCGUUCUUAUCGUGACCAUGAUCUGUAUGGCCUGCUGCGAAAGUGUACGCCGUAAGACGCCUCUUAACU
.........(((.....-...--..............((((((((.(..(((((....)))))..).))))))))..((....))))).....(((((....)))))... ( -22.60)
>DroGri_CAF1 6624 108 - 1
ACUGUUGUAUUA-AAUA-GGUAUUUUUUUACUGAUUUUAGGCCGUGCUAAUUGUGACCAUGAUCUGCAUGGCCUGCUGCGAGAGUGUGCGCAGAAAAACGCCGCUAAAUU
(((.(((((..(-(((.-((((......)))).))))((((((((((..((..(....)..))..)))))))))).))))).)))(((.((........)))))...... ( -33.00)
>DroSec_CAF1 2732 107 - 1
AAUAUUGAAUGCAAAUA-UAU--CCAAUUCUUAAACUUAGGUCGUUCUUAUCGUGACCAUGAUCUGCAUGGCCUGCUGCGAAAGUGUACGCCGUAAGACGCCUCUCAACU
....((((..((.....-...--................(((((.........)))))....(((..(((((.(((.((....))))).))))).))).))...)))).. ( -23.00)
>DroSim_CAF1 2740 109 - 1
AAUAUUGAAUACGAAUA-UACUCCCUAUUCCUAAAUUCAGGUCGUUCUUAUCGUGACCAUGAUCUGCAUGGCCUGCUGCGAAAGUGUACGCCGUAAGACGCCUCUCAACU
.....(((((..(((((-.......)))))....)))))((.(((.(((((.(((.(((((.....)))))..(((.((....)))))))).))))))))))........ ( -24.90)
>DroEre_CAF1 4804 108 - 1
UAUAUUGAUUAACAAAAAUCU--AUAUUUUGUCAAAUCAGGCUGUUCUUAUCGUGACCAUGAUAUGCAUGGCCUGUUGCGAGAGUGUACGCCGUAAGACGCCUCUCAACU
......((((.((((((....--...))))))..))))(((((((.(.((((((....)))))).).)))))))((((.(((.((((.(.......)))))))).)))). ( -28.80)
>DroYak_CAF1 2730 108 - 1
UAAAUUGAUUAACAAUAAUCC--GAAAUUGUAAAAAUCAGGCAGUUCUUAUCGUGACCAUGAUAUGCAUGGCCUGCUGCGAAAGUGUACGCCGUAAGACGCCUCUCAACU
.....(((((.(((((.....--...)))))...)))))(((.((...((((((....)))))).))(((((.(((.((....))))).))))).....)))........ ( -26.60)
>consensus
AAUAUUGAAUAAAAAUA_UAU__CCAAUUCUUAAAAUCAGGCCGUUCUUAUCGUGACCAUGAUCUGCAUGGCCUGCUGCGAAAGUGUACGCCGUAAGACGCCUCUCAACU
.......................................(((.((.(((((.(((.(((((.....)))))......((....))...))).))))))))))........ (-17.93 = -18.07 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:24 2006