miRNA display CGI


Results 1 - 20 of 30 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
30526 3' -54.1 NC_006548.1 + 29657 0.65 0.6539
Target:  5'- aGACUGGCUGCGGcucccugaauggcAGC-CGcACCAGCc- -3'
miRNA:   3'- -UUGGCCGACGCU-------------UUGaGU-UGGUCGuc -5'
30526 3' -54.1 NC_006548.1 + 29494 0.66 0.643469
Target:  5'- gGGCCagcuGCUGCGcgGCaacgUCGGCCAGCGa -3'
miRNA:   3'- -UUGGc---CGACGCuuUG----AGUUGGUCGUc -5'
30526 3' -54.1 NC_006548.1 + 16474 0.66 0.631869
Target:  5'- cGACCaGGCUGCGGcagagcacCUgGAgCAGCAGc -3'
miRNA:   3'- -UUGG-CCGACGCUuu------GAgUUgGUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 22151 0.66 0.597115
Target:  5'- aAGCgCGGCUGaacaucGCUCGGCCggGGCAGa -3'
miRNA:   3'- -UUG-GCCGACgcuu--UGAGUUGG--UCGUC- -5'
30526 3' -54.1 NC_006548.1 + 14381 0.66 0.597115
Target:  5'- cGCCGGCUuCGGccuGGCUCGggaacugcGCCuGCAGg -3'
miRNA:   3'- uUGGCCGAcGCU---UUGAGU--------UGGuCGUC- -5'
30526 3' -54.1 NC_006548.1 + 982 0.66 0.597115
Target:  5'- -gUCGGC-GCGGGAuCUCAACCuGCGc -3'
miRNA:   3'- uuGGCCGaCGCUUU-GAGUUGGuCGUc -5'
30526 3' -54.1 NC_006548.1 + 12866 0.66 0.59596
Target:  5'- cGCgCGGCacugGCGAgcaauacAGCUCAgguGCCGGUAGg -3'
miRNA:   3'- uUG-GCCGa---CGCU-------UUGAGU---UGGUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 33480 0.66 0.593651
Target:  5'- cGGCCGGC-GCGAuAUccgcauugagcuguUCGGCgGGCAGg -3'
miRNA:   3'- -UUGGCCGaCGCUuUG--------------AGUUGgUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 17634 0.67 0.585582
Target:  5'- aGACUGaGCUGgGGAGCUaGAUCgAGCAGg -3'
miRNA:   3'- -UUGGC-CGACgCUUUGAgUUGG-UCGUC- -5'
30526 3' -54.1 NC_006548.1 + 36953 0.67 0.585582
Target:  5'- cAGCCGGUUGCGGugcgcccacGACaCggUCAGCAc -3'
miRNA:   3'- -UUGGCCGACGCU---------UUGaGuuGGUCGUc -5'
30526 3' -54.1 NC_006548.1 + 22299 0.67 0.574093
Target:  5'- uGCC-GUUGCGGGugUCGGCCAGgCGa -3'
miRNA:   3'- uUGGcCGACGCUUugAGUUGGUC-GUc -5'
30526 3' -54.1 NC_006548.1 + 29586 0.67 0.572947
Target:  5'- gGugCGGCUGCcauucagGGAGCcgCAGCCAGUc- -3'
miRNA:   3'- -UugGCCGACG-------CUUUGa-GUUGGUCGuc -5'
30526 3' -54.1 NC_006548.1 + 36907 0.67 0.555823
Target:  5'- cAACCGGCUGCugcaggccgucaacuGGuuGACUCGucuGCgAGCAGc -3'
miRNA:   3'- -UUGGCCGACG---------------CU--UUGAGU---UGgUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 29234 0.68 0.525404
Target:  5'- -uCCGGCcGCGAucgagcgcgugaagGAuCUCcGCCAGCAGc -3'
miRNA:   3'- uuGGCCGaCGCU--------------UU-GAGuUGGUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 28713 0.68 0.517618
Target:  5'- gGGCCgGGCUGCGuugcgugaguacGAGCUUGACCAacGCAa -3'
miRNA:   3'- -UUGG-CCGACGC------------UUUGAGUUGGU--CGUc -5'
30526 3' -54.1 NC_006548.1 + 31512 0.68 0.506575
Target:  5'- uGACCuGCcGCGAu-CUCGACguGCAGg -3'
miRNA:   3'- -UUGGcCGaCGCUuuGAGUUGguCGUC- -5'
30526 3' -54.1 NC_006548.1 + 13928 0.68 0.505476
Target:  5'- cGCUGGCUGauucuacugacccUGAAcaauGCUCGGCCGGUGGg -3'
miRNA:   3'- uUGGCCGAC-------------GCUU----UGAGUUGGUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 24603 0.68 0.495635
Target:  5'- aAGCCGGCgacuucGUGAAGCUggaCGGCCAGUu- -3'
miRNA:   3'- -UUGGCCGa-----CGCUUUGA---GUUGGUCGuc -5'
30526 3' -54.1 NC_006548.1 + 36246 0.68 0.483726
Target:  5'- cGGCUGGaCUGCGGAcgucccgGCU--GCCGGCAGu -3'
miRNA:   3'- -UUGGCC-GACGCUU-------UGAguUGGUCGUC- -5'
30526 3' -54.1 NC_006548.1 + 2393 0.68 0.474085
Target:  5'- gAGCCGGCUG-GAAcccugGCUUcGCCAGCc- -3'
miRNA:   3'- -UUGGCCGACgCUU-----UGAGuUGGUCGuc -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.