miRNA display CGI


Results 1 - 19 of 19 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
13229 3' -57.1 NC_003401.1 + 110099 0.66 0.831433
Target:  5'- cGggGCggUCCccgugugcaccguGCGCCUGcAGCAcGGCu -3'
miRNA:   3'- -CuuCGuaAGG-------------CGCGGGC-UCGUaCCGu -5'
13229 3' -57.1 NC_003401.1 + 22627 0.66 0.82373
Target:  5'- uGAGCGgacCCGCGCCCGAacucuGCuguuuggGGUAu -3'
miRNA:   3'- cUUCGUaa-GGCGCGGGCU-----CGua-----CCGU- -5'
13229 3' -57.1 NC_003401.1 + 107792 0.66 0.818512
Target:  5'- uGGGCc--CCGCGCCCGguggcgcggacccggGaGCGUGGCGu -3'
miRNA:   3'- cUUCGuaaGGCGCGGGC---------------U-CGUACCGU- -5'
13229 3' -57.1 NC_003401.1 + 22803 0.66 0.809678
Target:  5'- cGGGUAUUaauggacgccgucaaCCGUGgCCGAGCAcGGCGa -3'
miRNA:   3'- cUUCGUAA---------------GGCGCgGGCUCGUaCCGU- -5'
13229 3' -57.1 NC_003401.1 + 23620 0.66 0.806098
Target:  5'- -cAGCAggCCaaaaacacggGCGCCgCGAGCGgccGGCAg -3'
miRNA:   3'- cuUCGUaaGG----------CGCGG-GCUCGUa--CCGU- -5'
13229 3' -57.1 NC_003401.1 + 18159 0.66 0.787816
Target:  5'- -uGGCGuUUCUG-GUCaCGGGCGUGGCAc -3'
miRNA:   3'- cuUCGU-AAGGCgCGG-GCUCGUACCGU- -5'
13229 3' -57.1 NC_003401.1 + 132457 0.66 0.787816
Target:  5'- gGAGGCcggCgGCGCCCGGcGCGcgGGCc -3'
miRNA:   3'- -CUUCGuaaGgCGCGGGCU-CGUa-CCGu -5'
13229 3' -57.1 NC_003401.1 + 10835 0.67 0.778454
Target:  5'- gGggGCGUcgCCuacggcgagGCGUCCGAGC-UGGUg -3'
miRNA:   3'- -CuuCGUAa-GG---------CGCGGGCUCGuACCGu -5'
13229 3' -57.1 NC_003401.1 + 64220 0.67 0.778454
Target:  5'- gGggGCc-UCCGUaCCCGGGCGguaccGGCAa -3'
miRNA:   3'- -CuuCGuaAGGCGcGGGCUCGUa----CCGU- -5'
13229 3' -57.1 NC_003401.1 + 11259 0.67 0.756424
Target:  5'- gGAAGCAUUCCGgcCGCCuCGAaacacugggccagcGCGacguUGGCGg -3'
miRNA:   3'- -CUUCGUAAGGC--GCGG-GCU--------------CGU----ACCGU- -5'
13229 3' -57.1 NC_003401.1 + 104368 0.67 0.749595
Target:  5'- aAAGCAUagaaucccugcUUCGCGCCaCGAGgAcGGCAg -3'
miRNA:   3'- cUUCGUA-----------AGGCGCGG-GCUCgUaCCGU- -5'
13229 3' -57.1 NC_003401.1 + 12428 0.68 0.708659
Target:  5'- cGAGGcCGUuuucgguuuucUCCGCGaCCGAGCAcguugagucguugUGGCAg -3'
miRNA:   3'- -CUUC-GUA-----------AGGCGCgGGCUCGU-------------ACCGU- -5'
13229 3' -57.1 NC_003401.1 + 105385 0.69 0.658313
Target:  5'- aGAGGCaAUUCCGUauuuCCCGGcGCaAUGGCAg -3'
miRNA:   3'- -CUUCG-UAAGGCGc---GGGCU-CG-UACCGU- -5'
13229 3' -57.1 NC_003401.1 + 73702 0.7 0.606401
Target:  5'- cGGGCAUUUUagGgGCCCGGGCGaGGCGu -3'
miRNA:   3'- cUUCGUAAGG--CgCGGGCUCGUaCCGU- -5'
13229 3' -57.1 NC_003401.1 + 52610 0.7 0.575426
Target:  5'- -------gCCGCGUCCGAGCAcGGCGg -3'
miRNA:   3'- cuucguaaGGCGCGGGCUCGUaCCGU- -5'
13229 3' -57.1 NC_003401.1 + 132509 0.7 0.565174
Target:  5'- gGggGCGgcggCCGCggGCCCGGGCcggcggGGCGg -3'
miRNA:   3'- -CuuCGUaa--GGCG--CGGGCUCGua----CCGU- -5'
13229 3' -57.1 NC_003401.1 + 132579 0.74 0.360698
Target:  5'- cGGGCgg-CCGcCGCCCG-GCAUGGCGg -3'
miRNA:   3'- cUUCGuaaGGC-GCGGGCuCGUACCGU- -5'
13229 3' -57.1 NC_003401.1 + 70635 0.75 0.314521
Target:  5'- cGAGGCG-UCUGUGgCCGAGCAaGGCAc -3'
miRNA:   3'- -CUUCGUaAGGCGCgGGCUCGUaCCGU- -5'
13229 3' -57.1 NC_003401.1 + 85664 1.08 0.001864
Target:  5'- uGAAGCAUUCCGCGCCCGAGCAUGGCAa -3'
miRNA:   3'- -CUUCGUAAGGCGCGGGCUCGUACCGU- -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.