Locus 5177

Sequence ID 2R_DroMel_CAF1
Location 16,843,915 – 16,844,019
Length 104
Max. P 0.541091
window8280

overview

Window 0

Location 16,843,915 – 16,844,019
Length 104
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 77.69
Mean single sequence MFE -19.14
Consensus MFE -12.75
Energy contribution -13.15
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.67
SVM decision value 0.01
SVM RNA-class probability 0.541091
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16843915 104 - 20766785
UAAUUCUAUGAAAAAUUAGGACAUCUGAUCCCUUUGUUUUUCAAAACAUAAGAGGCU-ACAAAGGAAGCCAUUGGUUGCACAGACGAAUGGCAAAUAACGCAUUU
...(((((........))))).........(((((((.((((.........))))..-)))))))..((((((.(((.....))).))))))............. ( -23.10)
>DroSec_CAF1 12801 84 - 1
AAAUUCUAUGAAUAAUUAAGACAUCUGAUCCCUUU--------------------CU-CCAAAGGAAGCCAUUGGUUGCACAGACGAAUGGCAAAUAACACAUUU
..............................(((((--------------------..-..)))))..((((((.(((.....))).))))))............. ( -15.50)
>DroSim_CAF1 12008 84 - 1
UAAUUCUAUGAAUAAUUAAGACAUCUGAUCCCUUU--------------------CU-CCAAAGGAAGCCAUUGGUUGCACAGACGAAUGGCAAAUAACACAUUU
..............................(((((--------------------..-..)))))..((((((.(((.....))).))))))............. ( -15.50)
>DroEre_CAF1 13496 104 - 1
UACCUCUAUAGAUAAUAAAGACGUCAGAUUCCUUCCGU-UUCAAAAUAUAAGAGGGUACAAAAGGAAGCCAUUGGUUGCACGGACGAAUGGCAAAUAACACAUUU
..((((((((........(((((..((....))..)))-)).....))).)))))............((((((.(((.....))).))))))............. ( -22.52)
>DroYak_CAF1 11999 104 - 1
UAACUCUAUGGAUAAUUUAAACAUCUGAUCCCUUCAAU-UUUAAAAUAUAAGUGGGUACAAAAGGAAGCCAUUGGUUGCACGGACGAAUGGCAAAUAACACACUU
..((.((((..(((.((((((....(((.....)))..-)))))).)))..))))))..........((((((.(((.....))).))))))............. ( -19.10)
>consensus
UAAUUCUAUGAAUAAUUAAGACAUCUGAUCCCUUU__U_UU_AAAA_AUAAG_GGCU_CCAAAGGAAGCCAUUGGUUGCACAGACGAAUGGCAAAUAACACAUUU
..............................(((((.........................)))))..((((((.(((.....))).))))))............. (-12.75 = -13.15 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:30 2006