miRNA display CGI


Results 1 - 20 of 26 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
23223 3' -56.3 NC_005259.1 + 50706 0.69 0.571831
Target:  5'- -uCGUCGcgCUUGAgCCGGGUGCugGc -3'
miRNA:   3'- cuGCGGCuaGAGCU-GGCCUACGugCu -5'
23223 3' -56.3 NC_005259.1 + 43418 0.66 0.759887
Target:  5'- cGGCGgCGGUuuccucgCUCGACUGGcUGCGCu- -3'
miRNA:   3'- -CUGCgGCUA-------GAGCUGGCCuACGUGcu -5'
23223 3' -56.3 NC_005259.1 + 67357 0.66 0.720249
Target:  5'- -uCGCCGAcCUCGcGCCGGAUcUugGGg -3'
miRNA:   3'- cuGCGGCUaGAGC-UGGCCUAcGugCU- -5'
23223 3' -56.3 NC_005259.1 + 50213 0.66 0.720249
Target:  5'- aGCGCCGccucgucaAUCUCGAUCcGA-GCGCGGg -3'
miRNA:   3'- cUGCGGC--------UAGAGCUGGcCUaCGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 39837 0.66 0.720249
Target:  5'- cGCGuuGGUCggCGACaGGAUGC-CGGu -3'
miRNA:   3'- cUGCggCUAGa-GCUGgCCUACGuGCU- -5'
23223 3' -56.3 NC_005259.1 + 64035 0.66 0.71714
Target:  5'- cGAgGCCGGugaccggaucuuucUCUUG-CCGGAUcaGCACGGc -3'
miRNA:   3'- -CUgCGGCU--------------AGAGCuGGCCUA--CGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 38298 0.66 0.709858
Target:  5'- cGGCGCUGAUCgUCgGACCGaucugugucauGGUGCcCGAg -3'
miRNA:   3'- -CUGCGGCUAG-AG-CUGGC-----------CUACGuGCU- -5'
23223 3' -56.3 NC_005259.1 + 42882 0.67 0.699396
Target:  5'- --gGUCGGUCUCGGUgGGGUugaGCACGAg -3'
miRNA:   3'- cugCGGCUAGAGCUGgCCUA---CGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 31890 0.67 0.688873
Target:  5'- -uCGCCGGUCUCaaGGCCcg--GCGCGAg -3'
miRNA:   3'- cuGCGGCUAGAG--CUGGccuaCGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 24273 0.67 0.667681
Target:  5'- cGugGCUGGaagcgCUCGACCucgGGAuggugcugcUGCGCGAu -3'
miRNA:   3'- -CugCGGCUa----GAGCUGG---CCU---------ACGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 65987 0.68 0.624997
Target:  5'- cGCGCCGAgcagccgCUCGACgUGG-UGCGCa- -3'
miRNA:   3'- cUGCGGCUa------GAGCUG-GCCuACGUGcu -5'
23223 3' -56.3 NC_005259.1 + 51995 1.09 0.001161
Target:  5'- cGACGCCGAUCUCGACCGGAUGCACGAg -3'
miRNA:   3'- -CUGCGGCUAGAGCUGGCCUACGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 50412 0.69 0.540425
Target:  5'- cGCGCCGGUgcCUUGACCGGcucggGCAgCGGu -3'
miRNA:   3'- cUGCGGCUA--GAGCUGGCCua---CGU-GCU- -5'
23223 3' -56.3 NC_005259.1 + 50836 0.69 0.540425
Target:  5'- cGACuCCGAUCUCGACaGGGgccaCGCGAg -3'
miRNA:   3'- -CUGcGGCUAGAGCUGgCCUac--GUGCU- -5'
23223 3' -56.3 NC_005259.1 + 17904 0.71 0.431542
Target:  5'- cGCGCCGAUg-CGugUGGAUGCcCGGu -3'
miRNA:   3'- cUGCGGCUAgaGCugGCCUACGuGCU- -5'
23223 3' -56.3 NC_005259.1 + 66922 0.71 0.422275
Target:  5'- aGCGCgCGGUgCUCGACCGGGgugaGCGgGAc -3'
miRNA:   3'- cUGCG-GCUA-GAGCUGGCCUa---CGUgCU- -5'
23223 3' -56.3 NC_005259.1 + 68132 0.71 0.422275
Target:  5'- aGCGgCGAgCUCGGCaGGAUGCGCGu -3'
miRNA:   3'- cUGCgGCUaGAGCUGgCCUACGUGCu -5'
23223 3' -56.3 NC_005259.1 + 14722 0.74 0.32104
Target:  5'- cACGCCGcgCUCGucGCCGaGAUGUACGc -3'
miRNA:   3'- cUGCGGCuaGAGC--UGGC-CUACGUGCu -5'
23223 3' -56.3 NC_005259.1 + 8269 0.74 0.298745
Target:  5'- cGACGuaGGUgUUGuACCGGGUGCGCGGg -3'
miRNA:   3'- -CUGCggCUAgAGC-UGGCCUACGUGCU- -5'
23223 3' -56.3 NC_005259.1 + 51511 0.75 0.263629
Target:  5'- -cCGCCGAUCUCGACgCGcGugaccucGUGCACGGg -3'
miRNA:   3'- cuGCGGCUAGAGCUG-GC-C-------UACGUGCU- -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.