Locus 4078

Sequence ID 2R_DroMel_CAF1
Location 13,454,368 – 13,454,473
Length 105
Max. P 0.599247
window6566

overview

Window 6

Location 13,454,368 – 13,454,473
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.32
Mean single sequence MFE -22.70
Consensus MFE -15.82
Energy contribution -16.02
Covariance contribution 0.20
Combinations/Pair 1.15
Mean z-score -2.83
Structure conservation index 0.70
SVM decision value 0.13
SVM RNA-class probability 0.599247
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13454368 105 - 20766785
AAAUGGAAAAAUGAAAUAAUUUU-UCA--GCGCUUCUUUUAUGCUAUUGACAACUUGCUAAGAAGCCUU--UAAAAUUGAUUCGUUUUCCUUUUUCAUUUUUU---------UUU-CCGC
....((((((.((((.(((((((-..(--(.(((((((....((............)).))))))))).--.))))))).)))))))))).............---------...-.... ( -23.50)
>DroSec_CAF1 3253 105 - 1
AAAUGGAAAAAUGAAAUAAUUUU-UCA--GCGCUUCUUUUAUGCUAUUGACAACUCGCUAAGAAGCCUU--UAAAAUUGAUUCGUUUUCCUUUUCCAUUUUUU---------UUU-UCGC
(((((((((((((((.(((((((-..(--(.(((((((....((............)).))))))))).--.))))))).))))).....))))))))))...---------...-.... ( -25.10)
>DroSim_CAF1 3416 103 - 1
AAAUGGAAAGAUGAAAUAAUUUU-UCA--GCGCUUCUUUUAUGCUAUUGACAACUCGCUAAGAAGCCUU--UAAAAUUGAUUCGUUUUCCUUUUCCAUUUUUU-----------U-UCUC
(((((((((((((((.(((((((-..(--(.(((((((....((............)).))))))))).--.))))))).)))))).....)))))))))...-----------.-.... ( -25.50)
>DroEre_CAF1 3725 102 - 1
AAAUGGAAAAAUGAAAUAAUUUU-UCA--GCGCUUCUUUUAUGCUAUUGACAACUCGCUAAGAAGCCUU--UAAAAUUGAUUCGUUUUCCUUUUACAUUUUU------------U-UCGC
....((((((.((((.(((((((-..(--(.(((((((....((............)).))))))))).--.))))))).))))))))))............------------.-.... ( -22.90)
>DroYak_CAF1 3853 114 - 1
AAAUGGAAAAAUGAAAUAAUUUU-UCA--GCGCUUCUUUUAUGCUAUUGACAACUCGCUGAGAAGCCUU--UAAAAUUGAUUCGAUUUCCUUUUAUAUUUUUUCUACGUUUUUGU-UCGC
....(((((..((((.(((((((-..(--(.(((((((....((............)).))))))))).--.))))))).)))).))))).........................-.... ( -20.90)
>DroPer_CAF1 2957 108 - 1
AAAUGGAAA-AUUAAAUAGUUUUUUCAUGGCGGUUCGU-AGUGUUAUUGACAAGU-GCUGAGAAGCCUUAUAAAAAUAGAUUCGUUUUUCCUUUAUAUAUUUU---------GCUGUCUG
....(((((-(...(((.((((((....(((..(((((-(.((((...))))..)-)).)))..)))....))))))..)))...))))))............---------........ ( -18.30)
>consensus
AAAUGGAAAAAUGAAAUAAUUUU_UCA__GCGCUUCUUUUAUGCUAUUGACAACUCGCUAAGAAGCCUU__UAAAAUUGAUUCGUUUUCCUUUUACAUUUUUU_________U_U_UCGC
....(((((.(((((.(((((((......(.(((((((....((............)).)))))))).....))))))).)))))))))).............................. (-15.82 = -16.02 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:12 2006