miRNA display CGI


Results 1 - 20 of 72 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
11605 3' -58.7 NC_003085.1 + 17042 0.66 0.558314
Target:  5'- aCGCCa-ACCuCCGGAgcuuCGAG-GGCGUCg -3'
miRNA:   3'- -GCGGagUGG-GGCCU----GCUCuUCGCAGg -5'
11605 3' -58.7 NC_003085.1 + 22889 0.66 0.558314
Target:  5'- cCGCCggACUCCGGuGCGuc-GGCGUUCg -3'
miRNA:   3'- -GCGGagUGGGGCC-UGCucuUCGCAGG- -5'
11605 3' -58.7 NC_003085.1 + 42542 0.66 0.558314
Target:  5'- cCGCUUCGCCUcggccagcgcgCGGGCGAGGGcugacGCGauggCCu -3'
miRNA:   3'- -GCGGAGUGGG-----------GCCUGCUCUU-----CGCa---GG- -5'
11605 3' -58.7 NC_003085.1 + 22414 0.66 0.547849
Target:  5'- aGUCcaucgaggUgACCCCGGAcuaccaguccguCGAGGAGCG-CCa -3'
miRNA:   3'- gCGG--------AgUGGGGCCU------------GCUCUUCGCaGG- -5'
11605 3' -58.7 NC_003085.1 + 5813 0.66 0.547849
Target:  5'- cCGCC---CCCCGGGCugcuGGAGGCGgauggCCu -3'
miRNA:   3'- -GCGGaguGGGGCCUGc---UCUUCGCa----GG- -5'
11605 3' -58.7 NC_003085.1 + 21293 0.66 0.547849
Target:  5'- gCGCCUgCACUUCGuAUGAG-GGCGUCg -3'
miRNA:   3'- -GCGGA-GUGGGGCcUGCUCuUCGCAGg -5'
11605 3' -58.7 NC_003085.1 + 31461 0.66 0.547849
Target:  5'- gGCCUCGCgCCguCGGACaGGAGGCagugaGUCa -3'
miRNA:   3'- gCGGAGUG-GG--GCCUGcUCUUCG-----CAGg -5'
11605 3' -58.7 NC_003085.1 + 39774 0.66 0.546805
Target:  5'- cCGCaUCACCCU-GACGcuugaguaccuccAGAAGuCGUCCa -3'
miRNA:   3'- -GCGgAGUGGGGcCUGC-------------UCUUC-GCAGG- -5'
11605 3' -58.7 NC_003085.1 + 11784 0.66 0.537445
Target:  5'- gCGCCgCGCUCCGGGCGuGucGGCuGcCCc -3'
miRNA:   3'- -GCGGaGUGGGGCCUGCuCu-UCG-CaGG- -5'
11605 3' -58.7 NC_003085.1 + 20318 0.66 0.537445
Target:  5'- cCGCCaccuUCACCCUGGAUGAacucuGGgccacGGCG-CCu -3'
miRNA:   3'- -GCGG----AGUGGGGCCUGCU-----CU-----UCGCaGG- -5'
11605 3' -58.7 NC_003085.1 + 6620 0.66 0.536409
Target:  5'- gGuCCUCaaguccgGCgCCGGACGuGAgcgcaaggugcuGGCGUCCc -3'
miRNA:   3'- gC-GGAG-------UGgGGCCUGCuCU------------UCGCAGG- -5'
11605 3' -58.7 NC_003085.1 + 16776 0.66 0.527111
Target:  5'- uGCCUuuccgCACCuuGu-UGAGggGCGUCUc -3'
miRNA:   3'- gCGGA-----GUGGggCcuGCUCuuCGCAGG- -5'
11605 3' -58.7 NC_003085.1 + 670 0.66 0.527111
Target:  5'- uGCCgugaGCCCCGcGA--AGAAGCG-CCg -3'
miRNA:   3'- gCGGag--UGGGGC-CUgcUCUUCGCaGG- -5'
11605 3' -58.7 NC_003085.1 + 19079 0.66 0.516852
Target:  5'- gCGCCg-GgCCCGGACG-GAGuGCG-CCg -3'
miRNA:   3'- -GCGGagUgGGGCCUGCuCUU-CGCaGG- -5'
11605 3' -58.7 NC_003085.1 + 33163 0.66 0.516852
Target:  5'- gCGCCUCuguUCCCGacagaaGAgGAGGAGCGgagauugcgCCa -3'
miRNA:   3'- -GCGGAGu--GGGGC------CUgCUCUUCGCa--------GG- -5'
11605 3' -58.7 NC_003085.1 + 44813 0.66 0.506674
Target:  5'- uCGCCUCugCCaccggGGGCGcGAGG-GUCg -3'
miRNA:   3'- -GCGGAGugGGg----CCUGCuCUUCgCAGg -5'
11605 3' -58.7 NC_003085.1 + 5714 0.66 0.506674
Target:  5'- gCGCC-CACCaCCgGGGCG-GAcccggcucgGGUGUCCc -3'
miRNA:   3'- -GCGGaGUGG-GG-CCUGCuCU---------UCGCAGG- -5'
11605 3' -58.7 NC_003085.1 + 4168 0.67 0.496583
Target:  5'- aCGCCUCcgACgaaggaCCGGACGGGugugacGgGUCCa -3'
miRNA:   3'- -GCGGAG--UGg-----GGCCUGCUCuu----CgCAGG- -5'
11605 3' -58.7 NC_003085.1 + 25640 0.67 0.486583
Target:  5'- gGCCgggCGCCCCgucuucaaGGACGuGGAGUacaUCCg -3'
miRNA:   3'- gCGGa--GUGGGG--------CCUGCuCUUCGc--AGG- -5'
11605 3' -58.7 NC_003085.1 + 20827 0.67 0.486583
Target:  5'- aCGCC--AUCCUGGAUGAGGcgaccGGCG-CCg -3'
miRNA:   3'- -GCGGagUGGGGCCUGCUCU-----UCGCaGG- -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.