miRNA display CGI


Results 1 - 20 of 56 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
28145 3' -50.5 NC_005887.1 + 935 0.66 0.910536
Target:  5'- --aUCGCGAGUGCcccgAGUGCUuCGGCGAa -3'
miRNA:   3'- gcaAGCGCUUGCG----UCAUGGuGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 1896 0.66 0.910536
Target:  5'- gCGUUCGUGucgccgaaGAUGCcGUACCAgguCGGCGGc -3'
miRNA:   3'- -GCAAGCGC--------UUGCGuCAUGGU---GUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 8683 0.66 0.910536
Target:  5'- --aUCGCGAcggUGCAGgGCC-CGGCGAu -3'
miRNA:   3'- gcaAGCGCUu--GCGUCaUGGuGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 26407 0.66 0.910536
Target:  5'- aUGUUCGCGcacccggccAGCGCcg-GCCACGGCc- -3'
miRNA:   3'- -GCAAGCGC---------UUGCGucaUGGUGUUGcu -5'
28145 3' -50.5 NC_005887.1 + 10353 0.66 0.903645
Target:  5'- ---aCGUGGACGcCGGUAUCACGuacaACGGc -3'
miRNA:   3'- gcaaGCGCUUGC-GUCAUGGUGU----UGCU- -5'
28145 3' -50.5 NC_005887.1 + 16856 0.66 0.903645
Target:  5'- ---cCGCGA--GguGUACCGCGGCGc -3'
miRNA:   3'- gcaaGCGCUugCguCAUGGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 39479 0.66 0.903645
Target:  5'- -aUUCGCGAgaugccgaACGCGGUcgcgACCACGguuGCGc -3'
miRNA:   3'- gcAAGCGCU--------UGCGUCA----UGGUGU---UGCu -5'
28145 3' -50.5 NC_005887.1 + 16184 0.66 0.903645
Target:  5'- gGUUgCGCGcGGCGCAGcGCCACcggaaAGCGu -3'
miRNA:   3'- gCAA-GCGC-UUGCGUCaUGGUG-----UUGCu -5'
28145 3' -50.5 NC_005887.1 + 42089 0.66 0.89646
Target:  5'- --gUCGCGugggGCGCGaUGCCGCGucgACGAa -3'
miRNA:   3'- gcaAGCGCu---UGCGUcAUGGUGU---UGCU- -5'
28145 3' -50.5 NC_005887.1 + 32108 0.66 0.89646
Target:  5'- cCGUcUGCGGGCGuCGGUGCCccgcACAucCGAg -3'
miRNA:   3'- -GCAaGCGCUUGC-GUCAUGG----UGUu-GCU- -5'
28145 3' -50.5 NC_005887.1 + 36717 0.66 0.89646
Target:  5'- --aUCGaaaagauGGGCGCAG-ACCACGACGc -3'
miRNA:   3'- gcaAGCg------CUUGCGUCaUGGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 10616 0.66 0.888984
Target:  5'- --aUCGCGAcacgcuucuCGCGGaGCCugGGCGGc -3'
miRNA:   3'- gcaAGCGCUu--------GCGUCaUGGugUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 3326 0.66 0.888984
Target:  5'- --aUCGCGGcgACGaAGUugCGCAGCGc -3'
miRNA:   3'- gcaAGCGCU--UGCgUCAugGUGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 4803 0.66 0.888984
Target:  5'- cCGUgcUCGCGGaucucGCGCAGUucuGCCGCGcCa- -3'
miRNA:   3'- -GCA--AGCGCU-----UGCGUCA---UGGUGUuGcu -5'
28145 3' -50.5 NC_005887.1 + 5397 0.66 0.888221
Target:  5'- ---gCGCGAccggugaaccggcGgGCGGcGCCGCAGCGAc -3'
miRNA:   3'- gcaaGCGCU-------------UgCGUCaUGGUGUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 15979 0.66 0.888221
Target:  5'- aGUUCGuCGAggaugucgugcgcGCGCAGacCCGCcGCGAg -3'
miRNA:   3'- gCAAGC-GCU-------------UGCGUCauGGUGuUGCU- -5'
28145 3' -50.5 NC_005887.1 + 18733 0.66 0.881223
Target:  5'- aCGUUCGaCGAgacugcGCGCAGcgGCUggaACAGCGu -3'
miRNA:   3'- -GCAAGC-GCU------UGCGUCa-UGG---UGUUGCu -5'
28145 3' -50.5 NC_005887.1 + 33707 0.66 0.881223
Target:  5'- --cUCGcCGAGCGCAGcGCgCGCuACGGg -3'
miRNA:   3'- gcaAGC-GCUUGCGUCaUG-GUGuUGCU- -5'
28145 3' -50.5 NC_005887.1 + 37070 0.66 0.881223
Target:  5'- uGUUCGCGuacggccuGCGC-GUGCuCGcCGGCGAg -3'
miRNA:   3'- gCAAGCGCu-------UGCGuCAUG-GU-GUUGCU- -5'
28145 3' -50.5 NC_005887.1 + 21182 0.66 0.881223
Target:  5'- gCGUUgGCGAGCaccguguuuGCGGcgACCGCGcCGAu -3'
miRNA:   3'- -GCAAgCGCUUG---------CGUCa-UGGUGUuGCU- -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.