miRNA display CGI


Results 1 - 20 of 25 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
23848 3' -52.6 NC_005261.1 + 127551 0.67 0.947724
Target:  5'- aUUGUCCGguUgUAC---GCGUGCGUCg -3'
miRNA:   3'- -AGCAGGCguAgAUGcucUGCACGUAG- -5'
23848 3' -52.6 NC_005261.1 + 126789 0.75 0.620365
Target:  5'- gCGUCUGCGUCUGcCGAGagcaGCGcgGCGUCu -3'
miRNA:   3'- aGCAGGCGUAGAU-GCUC----UGCa-CGUAG- -5'
23848 3' -52.6 NC_005261.1 + 121423 0.71 0.837299
Target:  5'- cCG-CCGCcgCUACGGGGCG-GCGg- -3'
miRNA:   3'- aGCaGGCGuaGAUGCUCUGCaCGUag -5'
23848 3' -52.6 NC_005261.1 + 121262 0.66 0.975498
Target:  5'- -gGUCCGCcgCagACGGGGCG-GCcgCc -3'
miRNA:   3'- agCAGGCGuaGa-UGCUCUGCaCGuaG- -5'
23848 3' -52.6 NC_005261.1 + 120303 0.66 0.969894
Target:  5'- uUCGagggCgGCgaggcuGUCUGCGAGGCGcgcUGCGUCc -3'
miRNA:   3'- -AGCa---GgCG------UAGAUGCUCUGC---ACGUAG- -5'
23848 3' -52.6 NC_005261.1 + 115697 0.67 0.952009
Target:  5'- aUGUCCGUGUCcguCGuguAGACGUGCGc- -3'
miRNA:   3'- aGCAGGCGUAGau-GC---UCUGCACGUag -5'
23848 3' -52.6 NC_005261.1 + 104167 0.73 0.7183
Target:  5'- cCGUCCGCgggcgccgcgcgcggGUCgucggGCGGGACG-GCGUCc -3'
miRNA:   3'- aGCAGGCG---------------UAGa----UGCUCUGCaCGUAG- -5'
23848 3' -52.6 NC_005261.1 + 103926 0.67 0.956052
Target:  5'- gUCGggcgCgGCGUCUGCcAGACGcUGCAg- -3'
miRNA:   3'- -AGCa---GgCGUAGAUGcUCUGC-ACGUag -5'
23848 3' -52.6 NC_005261.1 + 102185 0.66 0.9728
Target:  5'- gUCGaUCCGCGcguUCU-CGGGcGCGUGCGg- -3'
miRNA:   3'- -AGC-AGGCGU---AGAuGCUC-UGCACGUag -5'
23848 3' -52.6 NC_005261.1 + 94448 0.69 0.910748
Target:  5'- cCGUCCGCGUCcGCGucccccuccGCGUcgGCGUCg -3'
miRNA:   3'- aGCAGGCGUAGaUGCuc-------UGCA--CGUAG- -5'
23848 3' -52.6 NC_005261.1 + 93098 0.69 0.897931
Target:  5'- cUCGUCCGCAUC-GCGc-GCGU-CGUCg -3'
miRNA:   3'- -AGCAGGCGUAGaUGCucUGCAcGUAG- -5'
23848 3' -52.6 NC_005261.1 + 77129 0.76 0.561919
Target:  5'- cUCGUCCGCgacaagugggacaccGUCUcgcgccgccgccGCGAGGCGgGCAUCg -3'
miRNA:   3'- -AGCAGGCG---------------UAGA------------UGCUCUGCaCGUAG- -5'
23848 3' -52.6 NC_005261.1 + 75932 0.66 0.975498
Target:  5'- aCGUggcCCGCGUgUACGAGGCcUGCc-- -3'
miRNA:   3'- aGCA---GGCGUAgAUGCUCUGcACGuag -5'
23848 3' -52.6 NC_005261.1 + 74277 0.69 0.904463
Target:  5'- gCGUCCGCGgcggGCGGGGCGgucGCcgCc -3'
miRNA:   3'- aGCAGGCGUaga-UGCUCUGCa--CGuaG- -5'
23848 3' -52.6 NC_005261.1 + 73761 0.69 0.904463
Target:  5'- aCGgCCGCuUCUACGAGGCGcuggccUGCGa- -3'
miRNA:   3'- aGCaGGCGuAGAUGCUCUGC------ACGUag -5'
23848 3' -52.6 NC_005261.1 + 71681 0.73 0.724404
Target:  5'- aCGUCgGCGUCUGCG-GGCGUGacCAUg -3'
miRNA:   3'- aGCAGgCGUAGAUGCuCUGCAC--GUAg -5'
23848 3' -52.6 NC_005261.1 + 66624 0.69 0.897931
Target:  5'- gCGUgCGCAUggccgACGAGACcUGCGUCc -3'
miRNA:   3'- aGCAgGCGUAga---UGCUCUGcACGUAG- -5'
23848 3' -52.6 NC_005261.1 + 64035 0.66 0.975498
Target:  5'- cUCGUCgGCGcggcUCUGCGccgcGugGUGCGc- -3'
miRNA:   3'- -AGCAGgCGU----AGAUGCu---CugCACGUag -5'
23848 3' -52.6 NC_005261.1 + 63653 0.68 0.935426
Target:  5'- cCGUCCGCGUCcccguucaccauggGCGGGucccCGcGCGUCa -3'
miRNA:   3'- aGCAGGCGUAGa-------------UGCUCu---GCaCGUAG- -5'
23848 3' -52.6 NC_005261.1 + 63501 0.66 0.966772
Target:  5'- -gGUCCGC-----CGAGACGgGCGUCg -3'
miRNA:   3'- agCAGGCGuagauGCUCUGCaCGUAG- -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.