miRNA display CGI


Results 1 - 18 of 18 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
11350 3' -55.1 NC_003084.1 + 95328 0.66 0.867912
Target:  5'- uGAACaGUuuUGGCaCGcGCACGGAgCACCAc -3'
miRNA:   3'- -CUUG-CA--ACCGgGUuCGUGCCU-GUGGU- -5'
11350 3' -55.1 NC_003084.1 + 32776 0.66 0.852057
Target:  5'- aGAuCGUUGGCC--AGCAgaUGGugACCGu -3'
miRNA:   3'- -CUuGCAACCGGguUCGU--GCCugUGGU- -5'
11350 3' -55.1 NC_003084.1 + 15758 0.67 0.83535
Target:  5'- -cAUGUUGcGCCaccuGAaCGCGGACACCAu -3'
miRNA:   3'- cuUGCAAC-CGGg---UUcGUGCCUGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 67633 0.67 0.826694
Target:  5'- cGAACaagaggUGGCCCAA-CGCGGACgguucACCGc -3'
miRNA:   3'- -CUUGca----ACCGGGUUcGUGCCUG-----UGGU- -5'
11350 3' -55.1 NC_003084.1 + 42491 0.67 0.825818
Target:  5'- cGAACGUggaaauguugcgcUGGauucucaucaCCAAGUACGGGCuCCAg -3'
miRNA:   3'- -CUUGCA-------------ACCg---------GGUUCGUGCCUGuGGU- -5'
11350 3' -55.1 NC_003084.1 + 75597 0.67 0.799625
Target:  5'- aAAUGUUGGCCCAAgaauuGCGCccccacucuaguGGAC-CCAa -3'
miRNA:   3'- cUUGCAACCGGGUU-----CGUG------------CCUGuGGU- -5'
11350 3' -55.1 NC_003084.1 + 91072 0.67 0.799625
Target:  5'- -cGCGUaaauUGGUCCAucUAUGGGCGCCAg -3'
miRNA:   3'- cuUGCA----ACCGGGUucGUGCCUGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 75183 0.67 0.799625
Target:  5'- -cACGUUGGCCauguaCGCGGgcaACACCAc -3'
miRNA:   3'- cuUGCAACCGGguuc-GUGCC---UGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 46048 0.68 0.790265
Target:  5'- gGAugGUUGGUUaaacuGGCGCGGgguauauauaGCGCCAa -3'
miRNA:   3'- -CUugCAACCGGgu---UCGUGCC----------UGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 99016 0.68 0.790264
Target:  5'- cAACGUUGGCaCCGAGUuua-GCACCAu -3'
miRNA:   3'- cUUGCAACCG-GGUUCGugccUGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 95421 0.68 0.76032
Target:  5'- cGAGCGUacuguUGGCCCGuuuacCGCGGACgaaaaauugugucGCCAa -3'
miRNA:   3'- -CUUGCA-----ACCGGGUuc---GUGCCUG-------------UGGU- -5'
11350 3' -55.1 NC_003084.1 + 40325 0.68 0.748398
Target:  5'- gGGAgGUUGGgCUggguagcgcaugauGAGCACGGcCACCAu -3'
miRNA:   3'- -CUUgCAACCgGG--------------UUCGUGCCuGUGGU- -5'
11350 3' -55.1 NC_003084.1 + 33208 0.68 0.740362
Target:  5'- cGACGgUGGCCCGugugaugGGCGaGGACGCUg -3'
miRNA:   3'- cUUGCaACCGGGU-------UCGUgCCUGUGGu -5'
11350 3' -55.1 NC_003084.1 + 59865 0.7 0.647766
Target:  5'- aGAugGUUGGCCuCGAGUacuGCGGGUACUu -3'
miRNA:   3'- -CUugCAACCGG-GUUCG---UGCCUGUGGu -5'
11350 3' -55.1 NC_003084.1 + 60457 0.7 0.647766
Target:  5'- aGAACGUgGGCCUuguugcGGuCACGGGCGuCCAa -3'
miRNA:   3'- -CUUGCAaCCGGGu-----UC-GUGCCUGU-GGU- -5'
11350 3' -55.1 NC_003084.1 + 56559 0.7 0.626573
Target:  5'- cGAGCGUcagUGaGCCCAAGCGCGccGACGaguCCGg -3'
miRNA:   3'- -CUUGCA---AC-CGGGUUCGUGC--CUGU---GGU- -5'
11350 3' -55.1 NC_003084.1 + 540 0.78 0.274011
Target:  5'- uGAGCGUUGGCCUcAGCACGGGuCugUc -3'
miRNA:   3'- -CUUGCAACCGGGuUCGUGCCU-GugGu -5'
11350 3' -55.1 NC_003084.1 + 91246 1.09 0.002189
Target:  5'- cGAACGUUGGCCCAAGCACGGACACCAa -3'
miRNA:   3'- -CUUGCAACCGGGUUCGUGCCUGUGGU- -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.