miRNA display CGI


Results 1 - 20 of 22 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
1004 5' -52.3 NC_000924.1 + 16523 0.66 0.879493
Target:  5'- -gAUGUuucGCGUCAGGUgcuAUGGCAugGUCa -3'
miRNA:   3'- caUGCG---UGCGGUUCG---UACUGUugCGG- -5'
1004 5' -52.3 NC_000924.1 + 36340 0.66 0.878715
Target:  5'- aGU-CGCACGCUguucccacgucuuGAGCcggugcauguUGACAGCGCg -3'
miRNA:   3'- -CAuGCGUGCGG-------------UUCGu---------ACUGUUGCGg -5'
1004 5' -52.3 NC_000924.1 + 55101 0.66 0.871598
Target:  5'- uUACGUacACGCU--GCAUGAUuucCGCCg -3'
miRNA:   3'- cAUGCG--UGCGGuuCGUACUGuu-GCGG- -5'
1004 5' -52.3 NC_000924.1 + 21069 0.66 0.866737
Target:  5'- -aACGCccgcucuccagcucaACGCCAAuuGCAcGACGcccuaGCGCCa -3'
miRNA:   3'- caUGCG---------------UGCGGUU--CGUaCUGU-----UGCGG- -5'
1004 5' -52.3 NC_000924.1 + 24431 0.66 0.863445
Target:  5'- -cGCGUuuaGCGCCAcucuucccGCAUGGCGcaaaauCGCCg -3'
miRNA:   3'- caUGCG---UGCGGUu-------CGUACUGUu-----GCGG- -5'
1004 5' -52.3 NC_000924.1 + 4072 0.66 0.863445
Target:  5'- -aGCGC-CGCCAuaccGGUAUuGCAGCGgCa -3'
miRNA:   3'- caUGCGuGCGGU----UCGUAcUGUUGCgG- -5'
1004 5' -52.3 NC_000924.1 + 32595 0.66 0.863445
Target:  5'- gGUGCG-ACGUCAGGCGUGGCuaucaGUa -3'
miRNA:   3'- -CAUGCgUGCGGUUCGUACUGuug--CGg -5'
1004 5' -52.3 NC_000924.1 + 15334 0.66 0.855043
Target:  5'- uUAUGCugguuacuguuGCGCCuguuAGCGcGGCAACGUCc -3'
miRNA:   3'- cAUGCG-----------UGCGGu---UCGUaCUGUUGCGG- -5'
1004 5' -52.3 NC_000924.1 + 51115 0.67 0.837522
Target:  5'- gGUACagGCcCGCCuuGCccGUGGCAACGCg -3'
miRNA:   3'- -CAUG--CGuGCGGuuCG--UACUGUUGCGg -5'
1004 5' -52.3 NC_000924.1 + 50274 0.67 0.828421
Target:  5'- gGUGCGguUGCCGGauauCGUGGCAgACGUCa -3'
miRNA:   3'- -CAUGCguGCGGUUc---GUACUGU-UGCGG- -5'
1004 5' -52.3 NC_000924.1 + 49973 0.67 0.828421
Target:  5'- gGUGCGCGCGC--AGC-UGGCAACcgauCCu -3'
miRNA:   3'- -CAUGCGUGCGguUCGuACUGUUGc---GG- -5'
1004 5' -52.3 NC_000924.1 + 56139 0.67 0.819107
Target:  5'- --uUGuCACGCC-AGCA-GGCGGCGUCu -3'
miRNA:   3'- cauGC-GUGCGGuUCGUaCUGUUGCGG- -5'
1004 5' -52.3 NC_000924.1 + 238 0.67 0.819107
Target:  5'- ---aGCACGCauagguauGGCGUGACugauACGCUu -3'
miRNA:   3'- caugCGUGCGgu------UCGUACUGu---UGCGG- -5'
1004 5' -52.3 NC_000924.1 + 4400 0.67 0.808626
Target:  5'- -cAUGCAggcUGCCAuuaucgaauggcaGGCAacUGGCGACGCUa -3'
miRNA:   3'- caUGCGU---GCGGU-------------UCGU--ACUGUUGCGG- -5'
1004 5' -52.3 NC_000924.1 + 38106 0.68 0.797914
Target:  5'- -gACGCAcuggugcCGCUGAGCGcauccggugaaacUGuCAGCGCCg -3'
miRNA:   3'- caUGCGU-------GCGGUUCGU-------------ACuGUUGCGG- -5'
1004 5' -52.3 NC_000924.1 + 37301 0.68 0.789985
Target:  5'- aGUACGgGCuugucGCCAGuGUAUGACGauAUGCCc -3'
miRNA:   3'- -CAUGCgUG-----CGGUU-CGUACUGU--UGCGG- -5'
1004 5' -52.3 NC_000924.1 + 39896 0.69 0.748829
Target:  5'- uGUGCGguUGCggaAAGCAUGAUGAUGUg -3'
miRNA:   3'- -CAUGCguGCGg--UUCGUACUGUUGCGg -5'
1004 5' -52.3 NC_000924.1 + 26242 0.7 0.650219
Target:  5'- aUGCGaccggguuaACGCCAuugAGCGUGAUAagGCGCUg -3'
miRNA:   3'- cAUGCg--------UGCGGU---UCGUACUGU--UGCGG- -5'
1004 5' -52.3 NC_000924.1 + 56222 0.71 0.616625
Target:  5'- -gACGC-CGCCugcuGGCGUGACAAa-CCg -3'
miRNA:   3'- caUGCGuGCGGu---UCGUACUGUUgcGG- -5'
1004 5' -52.3 NC_000924.1 + 14999 0.71 0.605442
Target:  5'- -gACGCAaggcUGCCGAugaacugaccuGUAUGACAGCGCg -3'
miRNA:   3'- caUGCGU----GCGGUU-----------CGUACUGUUGCGg -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.