Locus 6627

Sequence ID 2R_DroMel_CAF1
Location 20,719,929 – 20,720,042
Length 113
Max. P 0.500000
window10554

overview

Window 4

Location 20,719,929 – 20,720,042
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -27.34
Consensus MFE -15.82
Energy contribution -16.06
Covariance contribution 0.24
Combinations/Pair 1.19
Mean z-score -1.66
Structure conservation index 0.58
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20719929 113 + 20766785
AAAAAAAA-AAGAAAUUUGUCAAGACACUGUAAGGCUCACCCCAGAUCUUAAAGUAUUUAUUUCAAAAUUGGCUUGUGGAGUAAAUGCUUUUGAUUGUCAAGGCACU------CAGUGUA
........-...............((((((....(((.......((((..(((((((((((((((.((.....)).))))))))))))))).)))).....)))...------)))))). ( -27.10)
>DroSec_CAF1 153307 118 + 1
UAGAAA-U-GUGGCAUUUGUCAAGACACAGCAAGGCUCACCACUGAUCUUAAAGUAUUUAUUUCCAAAUGAGCUUGUGGAGUAAAUGCUUUUGAUUGUCAAGGCACUCGUCAUCAGUGUA
......-.-(((((.(((((.........))))))).)))(((((((...(((((((((((((((((......))).)))))))))))))).((.(((....))).))...))))))).. ( -31.30)
>DroSim_CAF1 158391 118 + 1
UAGAAA-U-GUGGCAUUUGUCAAGACACAGCAAGGCUCACCGCUGAUCUUAAAGUAUUUAUUUCAAAAUUGGCUUAUGGAGUAAAUGCUUUUGAUUGUCAAGGCAUUCGUCAUCAGUGUA
......-.-(((((...((((..((((((((..((....))))))(((..(((((((((((((((.((.....)).))))))))))))))).)))))))..))))...)))))....... ( -31.50)
>DroEre_CAF1 193954 115 + 1
UAAAAA-G-AACGCAUUUGUCAAGCCACUACAAGGCCUCCCACAAAUCGUAAAGUAUUUAUUUUAAAAUUGGCUUGCGGA---UAUACUUUUGACUGUCAAGGCACUCGACAACAGCUAU
......-.-...(((((((.((((((.......((....))...(((..((((((....))))))..)))))))))))))---)......((((.(((....))).)))).....))... ( -21.50)
>DroYak_CAF1 159186 118 + 1
UAAAAA-UAAAGGCAUUUGCCAAGACAAUACGAGGGC-CCCACAAAUAGUAAAGUAUUGAUUUUAAAUUGGGCUUGCGGAGUAAAUACUUUUGACUGUCAAGGCAUUUGACAACAGCUAU
......-....(.((..((((..((((...((..(((-((.........((((((....))))))....)))))..))((((....)))).....))))..))))..)).)......... ( -25.32)
>consensus
UAAAAA_U_AAGGCAUUUGUCAAGACACUGCAAGGCUCACCACAGAUCUUAAAGUAUUUAUUUCAAAAUUGGCUUGUGGAGUAAAUGCUUUUGAUUGUCAAGGCACUCGACAACAGUGUA
.................((((..((((...(((((....))..........(((((((((((((.............))))))))))))))))..))))..))))............... (-15.82 = -16.06 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:34 2006