miRNA display CGI


Results 1 - 20 of 35 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24016 3' -59.3 NC_005262.1 + 26933 0.85 0.026739
Target:  5'- cGAGCCGGAUUcG-CGCCUAUCCGCGAc -3'
miRNA:   3'- -CUCGGCCUAGaCgGCGGAUAGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 28281 0.8 0.060838
Target:  5'- cGGCCGGcgCUGUCGCCUAUgCGCGc -3'
miRNA:   3'- cUCGGCCuaGACGGCGGAUAgGCGCu -5'
24016 3' -59.3 NC_005262.1 + 1486 0.77 0.105966
Target:  5'- -uGCCGGcgCUGCCGCUgcAUCUGCGGa -3'
miRNA:   3'- cuCGGCCuaGACGGCGGa-UAGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 5163 0.75 0.142753
Target:  5'- cGAGCCGG-UCgcacgcGCCGCCg--CCGCGGg -3'
miRNA:   3'- -CUCGGCCuAGa-----CGGCGGauaGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 54718 0.74 0.176031
Target:  5'- cGAGCCGGA-CUGCUcggcggaccacgaGCCgagCCGCGAg -3'
miRNA:   3'- -CUCGGCCUaGACGG-------------CGGauaGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 17637 0.74 0.176494
Target:  5'- -cGCCGcGG-CUGCCGCCUcgCgCGCGAc -3'
miRNA:   3'- cuCGGC-CUaGACGGCGGAuaG-GCGCU- -5'
24016 3' -59.3 NC_005262.1 + 8100 0.73 0.211656
Target:  5'- cGAGCCGGAgggccUUUGCCGCC--UCCG-GAg -3'
miRNA:   3'- -CUCGGCCU-----AGACGGCGGauAGGCgCU- -5'
24016 3' -59.3 NC_005262.1 + 43539 0.71 0.259048
Target:  5'- --aCCGGAUgUGCCGCCUgccGUCCG-GAu -3'
miRNA:   3'- cucGGCCUAgACGGCGGA---UAGGCgCU- -5'
24016 3' -59.3 NC_005262.1 + 6657 0.7 0.322325
Target:  5'- gGAGCCuGAUCgcGCCGCUcGUCgGCGGc -3'
miRNA:   3'- -CUCGGcCUAGa-CGGCGGaUAGgCGCU- -5'
24016 3' -59.3 NC_005262.1 + 46692 0.7 0.330028
Target:  5'- cGGGCgGGAUCUGUgGC--GUCUGCGGc -3'
miRNA:   3'- -CUCGgCCUAGACGgCGgaUAGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 22597 0.69 0.337866
Target:  5'- uAGCgGGA-CUGCCGCUUcgcgAUCCGCu- -3'
miRNA:   3'- cUCGgCCUaGACGGCGGA----UAGGCGcu -5'
24016 3' -59.3 NC_005262.1 + 60233 0.69 0.345838
Target:  5'- cGGCCGGGUaCUucGCCcauGCCUucgCCGCGAc -3'
miRNA:   3'- cUCGGCCUA-GA--CGG---CGGAua-GGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 43910 0.69 0.362184
Target:  5'- cGGCCGGccCgcgGCCGUgUcgCCGCGAu -3'
miRNA:   3'- cUCGGCCuaGa--CGGCGgAuaGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 43426 0.69 0.362184
Target:  5'- -cGCCGcGUCgaucGCCGCCUGUUCaGCGGc -3'
miRNA:   3'- cuCGGCcUAGa---CGGCGGAUAGG-CGCU- -5'
24016 3' -59.3 NC_005262.1 + 54519 0.69 0.362184
Target:  5'- cGGUCGGcgCgcgcgGCgGCCUGcgccUCCGCGAg -3'
miRNA:   3'- cUCGGCCuaGa----CGgCGGAU----AGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 57508 0.69 0.362184
Target:  5'- -uGCCGGAgcguugUCgGCCGCCUucUCgGCGGu -3'
miRNA:   3'- cuCGGCCU------AGaCGGCGGAu-AGgCGCU- -5'
24016 3' -59.3 NC_005262.1 + 32872 0.69 0.370556
Target:  5'- uGGCCGGcgC-GCCGCCggugucgagcuUGUCgGCGAu -3'
miRNA:   3'- cUCGGCCuaGaCGGCGG-----------AUAGgCGCU- -5'
24016 3' -59.3 NC_005262.1 + 14553 0.69 0.37906
Target:  5'- -cGCUGGAUCgGCaggCGUCUcgCCGCGGc -3'
miRNA:   3'- cuCGGCCUAGaCG---GCGGAuaGGCGCU- -5'
24016 3' -59.3 NC_005262.1 + 3723 0.68 0.386824
Target:  5'- uGAGCUGGGcCUG-CGCCUGgauggguUCCGCGc -3'
miRNA:   3'- -CUCGGCCUaGACgGCGGAU-------AGGCGCu -5'
24016 3' -59.3 NC_005262.1 + 53948 0.68 0.387693
Target:  5'- cGGCCGGcuugagcgcgAUCUGCuUGCC-GUCCGCGc -3'
miRNA:   3'- cUCGGCC----------UAGACG-GCGGaUAGGCGCu -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.