miRNA display CGI


Results 1 - 20 of 29 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
18961 3' -56.7 NC_004683.1 + 46650 0.65 0.687448
Target:  5'- cGCACCaugACGacccguaacgagacUGGgcugcUGGUccCGACGGGCGg -3'
miRNA:   3'- uCGUGGa--UGC--------------ACU-----ACCA--GCUGCCCGC- -5'
18961 3' -56.7 NC_004683.1 + 44260 0.66 0.669206
Target:  5'- uGGCACCgaagACGacgcGGcUCGACGcGGCGa -3'
miRNA:   3'- -UCGUGGa---UGCacuaCC-AGCUGC-CCGC- -5'
18961 3' -56.7 NC_004683.1 + 43138 0.66 0.669206
Target:  5'- uGCGgCUGCGUGGccGGaUCGACuGGCu -3'
miRNA:   3'- uCGUgGAUGCACUa-CC-AGCUGcCCGc -5'
18961 3' -56.7 NC_004683.1 + 52551 0.66 0.658427
Target:  5'- cGCGagacCCUGCGUGGUGauGUCG-CGcGGCa -3'
miRNA:   3'- uCGU----GGAUGCACUAC--CAGCuGC-CCGc -5'
18961 3' -56.7 NC_004683.1 + 45645 0.66 0.658427
Target:  5'- gAGCGCCUugacCGUGGgccagagguugUGGUUGuCGcGGCGc -3'
miRNA:   3'- -UCGUGGAu---GCACU-----------ACCAGCuGC-CCGC- -5'
18961 3' -56.7 NC_004683.1 + 16589 0.66 0.647625
Target:  5'- uGGCGUCgAUGUGcgGGUCGACcuguGGCGg -3'
miRNA:   3'- -UCGUGGaUGCACuaCCAGCUGc---CCGC- -5'
18961 3' -56.7 NC_004683.1 + 20493 0.66 0.636808
Target:  5'- uGGgGCCg--GUGGUGGagGcCGGGCGg -3'
miRNA:   3'- -UCgUGGaugCACUACCagCuGCCCGC- -5'
18961 3' -56.7 NC_004683.1 + 21685 0.67 0.625988
Target:  5'- cGCAUCaucacCGgGGUGGUCGguGCGGGUGg -3'
miRNA:   3'- uCGUGGau---GCaCUACCAGC--UGCCCGC- -5'
18961 3' -56.7 NC_004683.1 + 14073 0.67 0.604372
Target:  5'- cGCACCcgagUGCGUGAUGGUCaagaaaaacgGACucaaGGGUc -3'
miRNA:   3'- uCGUGG----AUGCACUACCAG----------CUG----CCCGc -5'
18961 3' -56.7 NC_004683.1 + 51056 0.67 0.582848
Target:  5'- cGGCGCCUugGcgGcgGGUgCGGcCGGaGCGc -3'
miRNA:   3'- -UCGUGGAugCa-CuaCCA-GCU-GCC-CGC- -5'
18961 3' -56.7 NC_004683.1 + 45747 0.67 0.572142
Target:  5'- cAGCGCCgAUGUGccGG-CGGCcGGGUGa -3'
miRNA:   3'- -UCGUGGaUGCACuaCCaGCUG-CCCGC- -5'
18961 3' -56.7 NC_004683.1 + 49427 0.67 0.572142
Target:  5'- gGGCACCggcCGUcGUGGU--GCGGGCa -3'
miRNA:   3'- -UCGUGGau-GCAcUACCAgcUGCCCGc -5'
18961 3' -56.7 NC_004683.1 + 2709 0.68 0.56042
Target:  5'- cGGC-CCgauugggucgACGUGGUGGUCGaggaacggaugguGCGcGGCGg -3'
miRNA:   3'- -UCGuGGa---------UGCACUACCAGC-------------UGC-CCGC- -5'
18961 3' -56.7 NC_004683.1 + 23906 0.68 0.540336
Target:  5'- cAGCGCCgcguagGCGUGgcGGcCGACGG-Ca -3'
miRNA:   3'- -UCGUGGa-----UGCACuaCCaGCUGCCcGc -5'
18961 3' -56.7 NC_004683.1 + 9687 0.68 0.540336
Target:  5'- gGGCACCaACGcGGUGGcCGACcgugaGGCGu -3'
miRNA:   3'- -UCGUGGaUGCaCUACCaGCUGc----CCGC- -5'
18961 3' -56.7 NC_004683.1 + 25462 0.68 0.509148
Target:  5'- cAGUACCUcuACGUGGUGGccaccgCGGCGcuGGCc -3'
miRNA:   3'- -UCGUGGA--UGCACUACCa-----GCUGC--CCGc -5'
18961 3' -56.7 NC_004683.1 + 19469 0.68 0.509148
Target:  5'- cAGCcgAUCgcgACGUGAgugacGUCGGCGGGCa -3'
miRNA:   3'- -UCG--UGGa--UGCACUac---CAGCUGCCCGc -5'
18961 3' -56.7 NC_004683.1 + 44810 0.69 0.498918
Target:  5'- gAGCuugucgGCCUcgGCGUaGUGGuacgUCGGCGGGCGc -3'
miRNA:   3'- -UCG------UGGA--UGCAcUACC----AGCUGCCCGC- -5'
18961 3' -56.7 NC_004683.1 + 52328 0.7 0.433943
Target:  5'- uGCGCCUugGUGccgcgccggcccgGGUCGcCGaGGCGg -3'
miRNA:   3'- uCGUGGAugCACua-----------CCAGCuGC-CCGC- -5'
18961 3' -56.7 NC_004683.1 + 6622 0.7 0.411556
Target:  5'- cGGCGCCU--GUG-UGGUUG-CGGGCGc -3'
miRNA:   3'- -UCGUGGAugCACuACCAGCuGCCCGC- -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.