miRNA display CGI


Results 1 - 20 of 53 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
11359 3' -49.9 NC_003084.1 + 78224 0.66 0.984746
Target:  5'- aGCuCCACCGcgaaacgcagucGUGGUUccGGUuguugUGUGCg -3'
miRNA:   3'- aCGuGGUGGC------------CACCAAuuUCA-----ACACG- -5'
11359 3' -49.9 NC_003084.1 + 5215 0.68 0.95518
Target:  5'- cGCACCACCGGUaGGUggaccGGUa---- -3'
miRNA:   3'- aCGUGGUGGCCA-CCAauu--UCAacacg -5'
11359 3' -49.9 NC_003084.1 + 64795 0.68 0.959198
Target:  5'- aGgGCCACCG-----UGAGGUUGUGCg -3'
miRNA:   3'- aCgUGGUGGCcaccaAUUUCAACACG- -5'
11359 3' -49.9 NC_003084.1 + 25740 0.68 0.969746
Target:  5'- aGCACCAgCGGcccgGGUgcacgcuGGacgUGUGCg -3'
miRNA:   3'- aCGUGGUgGCCa---CCAauu----UCa--ACACG- -5'
11359 3' -49.9 NC_003084.1 + 100917 0.67 0.972784
Target:  5'- aGCcCCACCGGUGGagucaagAAGGUUc-GCu -3'
miRNA:   3'- aCGuGGUGGCCACCaa-----UUUCAAcaCG- -5'
11359 3' -49.9 NC_003084.1 + 97423 0.67 0.975594
Target:  5'- gGCACCGCCaGGUGGUUcccgcuGacGUGg -3'
miRNA:   3'- aCGUGGUGG-CCACCAAuuu---CaaCACg -5'
11359 3' -49.9 NC_003084.1 + 33370 0.67 0.978186
Target:  5'- cGCACuCcCCGGUGag-GAAGUUGgGCc -3'
miRNA:   3'- aCGUG-GuGGCCACcaaUUUCAACaCG- -5'
11359 3' -49.9 NC_003084.1 + 651 0.67 0.98057
Target:  5'- cGCACCAUUGc-GGUUccauccucGGUUGUGCg -3'
miRNA:   3'- aCGUGGUGGCcaCCAAuu------UCAACACG- -5'
11359 3' -49.9 NC_003084.1 + 6409 0.67 0.982332
Target:  5'- aGCuCCACCGGUGcacccuccAGUcGUGCu -3'
miRNA:   3'- aCGuGGUGGCCACcaauu---UCAaCACG- -5'
11359 3' -49.9 NC_003084.1 + 10506 0.68 0.953924
Target:  5'- uUGCACgACUGGUGGaUAGGGUggacaaugagacgaUGacUGCg -3'
miRNA:   3'- -ACGUGgUGGCCACCaAUUUCA--------------AC--ACG- -5'
11359 3' -49.9 NC_003084.1 + 65701 0.69 0.94636
Target:  5'- -uCACCACCGGUGccGUUGgcAAGUcccgGUGUg -3'
miRNA:   3'- acGUGGUGGCCAC--CAAU--UUCAa---CACG- -5'
11359 3' -49.9 NC_003084.1 + 91437 0.7 0.91776
Target:  5'- cGgACCACCGGUGGUUcagcauauuccggcGAAGcuagcUGCa -3'
miRNA:   3'- aCgUGGUGGCCACCAA--------------UUUCaac--ACG- -5'
11359 3' -49.9 NC_003084.1 + 3685 0.74 0.74029
Target:  5'- cGCACCAUcagauucaCGGUGGUU-AAGcUGUGUa -3'
miRNA:   3'- aCGUGGUG--------GCCACCAAuUUCaACACG- -5'
11359 3' -49.9 NC_003084.1 + 36696 0.74 0.760924
Target:  5'- aUGUAauccCCACUGGUGGaacuguaAAGGUUGUGCc -3'
miRNA:   3'- -ACGU----GGUGGCCACCaa-----UUUCAACACG- -5'
11359 3' -49.9 NC_003084.1 + 46316 0.73 0.780042
Target:  5'- cGC-CCACCGGUGGUUGuaccgauaaauacGcuccAGUUGcUGCu -3'
miRNA:   3'- aCGuGGUGGCCACCAAU-------------U----UCAAC-ACG- -5'
11359 3' -49.9 NC_003084.1 + 52163 0.73 0.810024
Target:  5'- aGCACCAgUGGUGaGUU-GAGUgcgGUGUa -3'
miRNA:   3'- aCGUGGUgGCCAC-CAAuUUCAa--CACG- -5'
11359 3' -49.9 NC_003084.1 + 29926 0.72 0.83735
Target:  5'- aGCACgACCGGUcg--GAAGUUGgUGCg -3'
miRNA:   3'- aCGUGgUGGCCAccaaUUUCAAC-ACG- -5'
11359 3' -49.9 NC_003084.1 + 59920 0.71 0.862753
Target:  5'- -cCACCACCGGUGaGcucAGGUgGUGCg -3'
miRNA:   3'- acGUGGUGGCCAC-CaauUUCAaCACG- -5'
11359 3' -49.9 NC_003084.1 + 27066 0.71 0.870754
Target:  5'- aGCGCUACCaGUGGUUAcggaugcccGAGUUGg-- -3'
miRNA:   3'- aCGUGGUGGcCACCAAU---------UUCAACacg -5'
11359 3' -49.9 NC_003084.1 + 33763 0.7 0.90696
Target:  5'- cGCACgACUGGgGGaUGGAGUUgaccGUGCa -3'
miRNA:   3'- aCGUGgUGGCCaCCaAUUUCAA----CACG- -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.