miRNA display CGI


Results 1 - 20 of 34 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
23363 3' -59.9 NC_005259.1 + 44418 0.66 0.50773
Target:  5'- -gCCugacCGGCAGCGCCgAUACcgGCCC-Cg -3'
miRNA:   3'- uaGGu---GCCGUCGUGGgUGUG--UGGGaG- -5'
23363 3' -59.9 NC_005259.1 + 37676 0.66 0.50773
Target:  5'- -gCCACGGUugguguauGUGCCCGCGCcggacugauuuuGCCCUg -3'
miRNA:   3'- uaGGUGCCGu-------CGUGGGUGUG------------UGGGAg -5'
23363 3' -59.9 NC_005259.1 + 13614 0.66 0.50773
Target:  5'- -aCCACGGCAaccaCAUCUGCGgGCCgCUCa -3'
miRNA:   3'- uaGGUGCCGUc---GUGGGUGUgUGG-GAG- -5'
23363 3' -59.9 NC_005259.1 + 61362 0.66 0.497633
Target:  5'- -cUCGgGGCGguccaaccaccuGCugCCACACGCCCg- -3'
miRNA:   3'- uaGGUgCCGU------------CGugGGUGUGUGGGag -5'
23363 3' -59.9 NC_005259.1 + 48451 0.66 0.497633
Target:  5'- ---aGCGGCAGCGCguuccaCCGCGCGCCg-- -3'
miRNA:   3'- uaggUGCCGUCGUG------GGUGUGUGGgag -5'
23363 3' -59.9 NC_005259.1 + 67523 0.66 0.497633
Target:  5'- -aCCucuCGGCGGCaaucaccuuGCCCGCGagAUCCUCa -3'
miRNA:   3'- uaGGu--GCCGUCG---------UGGGUGUg-UGGGAG- -5'
23363 3' -59.9 NC_005259.1 + 60434 0.66 0.487627
Target:  5'- -cCCACGG-GGCGgCCACGCccgACaCCUCg -3'
miRNA:   3'- uaGGUGCCgUCGUgGGUGUG---UG-GGAG- -5'
23363 3' -59.9 NC_005259.1 + 40581 0.66 0.487627
Target:  5'- uGUCgGCGGCucGCACCaGCACAUCgUUg -3'
miRNA:   3'- -UAGgUGCCGu-CGUGGgUGUGUGGgAG- -5'
23363 3' -59.9 NC_005259.1 + 59602 0.66 0.471819
Target:  5'- -cUCACGGUcccgccgacaggacaGGCACCCACGgcgucUGCCCUUu -3'
miRNA:   3'- uaGGUGCCG---------------UCGUGGGUGU-----GUGGGAG- -5'
23363 3' -59.9 NC_005259.1 + 19837 0.66 0.467908
Target:  5'- -aUCGCGGCuGCugCCGCGCucggugugGCgCUCg -3'
miRNA:   3'- uaGGUGCCGuCGugGGUGUG--------UGgGAG- -5'
23363 3' -59.9 NC_005259.1 + 570 0.66 0.458202
Target:  5'- -aCCACGGCgugggggucgAGCuacgacaacACCCACGgCACCCa- -3'
miRNA:   3'- uaGGUGCCG----------UCG---------UGGGUGU-GUGGGag -5'
23363 3' -59.9 NC_005259.1 + 44355 0.66 0.458202
Target:  5'- uUCCACGGCucguugccgaGGCuCgCCACAcCGCCCa- -3'
miRNA:   3'- uAGGUGCCG----------UCGuG-GGUGU-GUGGGag -5'
23363 3' -59.9 NC_005259.1 + 26323 0.66 0.458202
Target:  5'- uAUCCuCGGgGucGCACagauaGCACGCCCUCg -3'
miRNA:   3'- -UAGGuGCCgU--CGUGgg---UGUGUGGGAG- -5'
23363 3' -59.9 NC_005259.1 + 55369 0.67 0.448606
Target:  5'- -gCgACGGCAGCcgugaucaguGCCCACGuuUCCUCg -3'
miRNA:   3'- uaGgUGCCGUCG----------UGGGUGUguGGGAG- -5'
23363 3' -59.9 NC_005259.1 + 27089 0.67 0.428823
Target:  5'- uUCUGCGGCGGCugCCAUgcgguggGCugUgUCa -3'
miRNA:   3'- uAGGUGCCGUCGugGGUG-------UGugGgAG- -5'
23363 3' -59.9 NC_005259.1 + 255 0.67 0.420503
Target:  5'- -gCCACGGCaaaacggcuagGGCgguguacgccGCCUACGCGgCCUCg -3'
miRNA:   3'- uaGGUGCCG-----------UCG----------UGGGUGUGUgGGAG- -5'
23363 3' -59.9 NC_005259.1 + 13336 0.67 0.411374
Target:  5'- -cCCACGGCGGgacCGCCCcgcCGCACCgaUCa -3'
miRNA:   3'- uaGGUGCCGUC---GUGGGu--GUGUGGg-AG- -5'
23363 3' -59.9 NC_005259.1 + 61958 0.67 0.411374
Target:  5'- -gCCACcGCAGC-CUCACGCGCCgCUg -3'
miRNA:   3'- uaGGUGcCGUCGuGGGUGUGUGG-GAg -5'
23363 3' -59.9 NC_005259.1 + 45736 0.67 0.410468
Target:  5'- -aCCACcgaGGCcGCGCaCCgccucggggaugaGCACGCCCUCg -3'
miRNA:   3'- uaGGUG---CCGuCGUG-GG-------------UGUGUGGGAG- -5'
23363 3' -59.9 NC_005259.1 + 41122 0.67 0.402369
Target:  5'- -aUguCGGCGGUGCCCgcgucGCGCAgCCUCa -3'
miRNA:   3'- uaGguGCCGUCGUGGG-----UGUGUgGGAG- -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.