miRNA display CGI


Results 1 - 20 of 51 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
19276 3' -58.9 NC_004685.1 + 14410 0.66 0.620687
Target:  5'- gCGGCAgcgucAGCUgcgCGCCGAGGcCGagGcGAa -3'
miRNA:   3'- aGCCGU-----UCGA---GCGGCUCCaGCagC-CU- -5'
19276 3' -58.9 NC_004685.1 + 37888 0.66 0.611246
Target:  5'- gUCGGCGAgacggucgucgugucGCUCGguCCGuccacccagcgggcGGGUgGUCGGAg -3'
miRNA:   3'- -AGCCGUU---------------CGAGC--GGC--------------UCCAgCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 42699 0.66 0.610198
Target:  5'- gUCGGCAGGCagCGCCu-GGUgGUCu-- -3'
miRNA:   3'- -AGCCGUUCGa-GCGGcuCCAgCAGccu -5'
19276 3' -58.9 NC_004685.1 + 3215 0.66 0.610198
Target:  5'- gCGGCGgaaaugccggGGCgggGUCGGGGUCGggcCGGAc -3'
miRNA:   3'- aGCCGU----------UCGag-CGGCUCCAGCa--GCCU- -5'
19276 3' -58.9 NC_004685.1 + 20086 0.66 0.610198
Target:  5'- gUCGGCcAGCcCGCCuacGAGGgcgCG-CGGGu -3'
miRNA:   3'- -AGCCGuUCGaGCGG---CUCCa--GCaGCCU- -5'
19276 3' -58.9 NC_004685.1 + 66369 0.66 0.610198
Target:  5'- aUCGGCcAGUUUGCCGucGUCGaCGa- -3'
miRNA:   3'- -AGCCGuUCGAGCGGCucCAGCaGCcu -5'
19276 3' -58.9 NC_004685.1 + 45739 0.66 0.610198
Target:  5'- aCGGCAgcGGgUCGCCGGGG-CGgcgCGu- -3'
miRNA:   3'- aGCCGU--UCgAGCGGCUCCaGCa--GCcu -5'
19276 3' -58.9 NC_004685.1 + 37692 0.66 0.610198
Target:  5'- gCGGCuccGGCUUGCCGGuGUUGUUGa- -3'
miRNA:   3'- aGCCGu--UCGAGCGGCUcCAGCAGCcu -5'
19276 3' -58.9 NC_004685.1 + 44651 0.66 0.59868
Target:  5'- gUGGUAguacagggggaucAGCUCGUcggaguCGGGGUUGUUGGGa -3'
miRNA:   3'- aGCCGU-------------UCGAGCG------GCUCCAGCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 41777 0.66 0.59868
Target:  5'- uUUGGUggGgUCGCCcaccaucGAGGUCGgccCGGu -3'
miRNA:   3'- -AGCCGuuCgAGCGG-------CUCCAGCa--GCCu -5'
19276 3' -58.9 NC_004685.1 + 25982 0.66 0.58928
Target:  5'- cUUGGUGAGCUCGC--GGGacaGUCGGGc -3'
miRNA:   3'- -AGCCGUUCGAGCGgcUCCag-CAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 59697 0.66 0.58928
Target:  5'- gUCGaGCAu-CUUGUCGGGGUCcUCGGGu -3'
miRNA:   3'- -AGC-CGUucGAGCGGCUCCAGcAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 54081 0.66 0.58928
Target:  5'- aUGuCAGGgUCGCCGGGGUUGUagucgaCGGGg -3'
miRNA:   3'- aGCcGUUCgAGCGGCUCCAGCA------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 59461 0.66 0.58928
Target:  5'- aCGGUcAGCUCGCCGuuggacagcucGGG-CGgcggCGGGu -3'
miRNA:   3'- aGCCGuUCGAGCGGC-----------UCCaGCa---GCCU- -5'
19276 3' -58.9 NC_004685.1 + 53863 0.66 0.588237
Target:  5'- uUCGuaGGGCUUGCCGuccgcGGGUCaguggucagcgagGUCGGGc -3'
miRNA:   3'- -AGCcgUUCGAGCGGC-----UCCAG-------------CAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 2342 0.66 0.578866
Target:  5'- gCGGCGcaCgUCGCCGAGGUUGggcacccCGGGc -3'
miRNA:   3'- aGCCGUucG-AGCGGCUCCAGCa------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 61451 0.66 0.578866
Target:  5'- -gGGC-AGCgUCGCCGuAGccgacgcuguuGUCGUCGGGc -3'
miRNA:   3'- agCCGuUCG-AGCGGC-UC-----------CAGCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 31755 0.66 0.577826
Target:  5'- cCGGCcAGCUccgaccacccgccCGCUGGGGUgGaCGGAc -3'
miRNA:   3'- aGCCGuUCGA-------------GCGGCUCCAgCaGCCU- -5'
19276 3' -58.9 NC_004685.1 + 53374 0.67 0.568492
Target:  5'- gCGGCGAuGCUgGCC-AGcUCGUCGGc -3'
miRNA:   3'- aGCCGUU-CGAgCGGcUCcAGCAGCCu -5'
19276 3' -58.9 NC_004685.1 + 62461 0.67 0.568492
Target:  5'- cUCGGCGaucAGCUCGUCaAGcUgGUCGGGu -3'
miRNA:   3'- -AGCCGU---UCGAGCGGcUCcAgCAGCCU- -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.