miRNA display CGI


Results 1 - 17 of 17 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
18056 3' -49.9 NC_004680.1 + 27871 0.69 0.827215
Target:  5'- --gCGCGAucggCgCGaaGCUCGGCAUCGAa -3'
miRNA:   3'- uuaGCGUUuua-G-GC--UGAGCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 12385 0.69 0.845636
Target:  5'- --cUGCcGGGUCCGGCUCcGGUGUCGu -3'
miRNA:   3'- uuaGCGuUUUAGGCUGAG-CCGUAGCu -5'
18056 3' -49.9 NC_004680.1 + 33204 0.68 0.863089
Target:  5'- --aCGUAAAGUCCGcCcCGGCGUCc- -3'
miRNA:   3'- uuaGCGUUUUAGGCuGaGCCGUAGcu -5'
18056 3' -49.9 NC_004680.1 + 1468 0.66 0.933746
Target:  5'- gGAUCGCGAAGgacuaCGACcguacCGGUAUUGAu -3'
miRNA:   3'- -UUAGCGUUUUag---GCUGa----GCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 44219 0.66 0.939192
Target:  5'- cAUCGCAcuGUCCGgGCcuagCGGCAgCGGg -3'
miRNA:   3'- uUAGCGUuuUAGGC-UGa---GCCGUaGCU- -5'
18056 3' -49.9 NC_004680.1 + 22064 0.66 0.944343
Target:  5'- uAUCGCGAugcguGGUCCGg--CGGCGuUCGAg -3'
miRNA:   3'- uUAGCGUU-----UUAGGCugaGCCGU-AGCU- -5'
18056 3' -49.9 NC_004680.1 + 36544 0.66 0.947773
Target:  5'- cGUCGCugucGAGUCCGagaagaagauguugGCUgCGGCgAUCGAa -3'
miRNA:   3'- uUAGCGu---UUUAGGC--------------UGA-GCCG-UAGCU- -5'
18056 3' -49.9 NC_004680.1 + 5242 0.79 0.325815
Target:  5'- --aCGCGAuuUCCGACacCGGCGUCGAu -3'
miRNA:   3'- uuaGCGUUuuAGGCUGa-GCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 2799 1.08 0.004595
Target:  5'- cAAUCGCAAAAUCCGACUCGGCAUCGAg -3'
miRNA:   3'- -UUAGCGUUUUAGGCUGAGCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 3301 0.74 0.587452
Target:  5'- -uUCGCGcuGUCCGGCaUCaGCAUCGGc -3'
miRNA:   3'- uuAGCGUuuUAGGCUG-AGcCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 43417 0.7 0.7878
Target:  5'- aGGUCuCAAAGUCUucacagcaGACUCGGCAUaCGAc -3'
miRNA:   3'- -UUAGcGUUUUAGG--------CUGAGCCGUA-GCU- -5'
18056 3' -49.9 NC_004680.1 + 14448 0.7 0.797947
Target:  5'- --aCGCAGgaacacAAUCUGAUUCGGCAgcagCGGa -3'
miRNA:   3'- uuaGCGUU------UUAGGCUGAGCCGUa---GCU- -5'
18056 3' -49.9 NC_004680.1 + 25727 0.7 0.807906
Target:  5'- uGUCGCAGuGUuuGGgUgCGGCGUCGGc -3'
miRNA:   3'- uUAGCGUUuUAggCUgA-GCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 28336 0.68 0.887296
Target:  5'- --gCGCGGg--CgGugUCGGCGUCGGg -3'
miRNA:   3'- uuaGCGUUuuaGgCugAGCCGUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 13660 0.67 0.902037
Target:  5'- uGUCGUAGuugaaCGugUCGGuCAUCGAc -3'
miRNA:   3'- uUAGCGUUuuag-GCugAGCC-GUAGCU- -5'
18056 3' -49.9 NC_004680.1 + 13137 0.67 0.928
Target:  5'- aGGUCGUAccAUCCGug-CGGCGUCa- -3'
miRNA:   3'- -UUAGCGUuuUAGGCugaGCCGUAGcu -5'
18056 3' -49.9 NC_004680.1 + 43251 0.66 0.948727
Target:  5'- -cUUGCGGGAuucuuuuUCUGACU-GGCGUCGGc -3'
miRNA:   3'- uuAGCGUUUU-------AGGCUGAgCCGUAGCU- -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.