miRNA display CGI


Results 1 - 15 of 15 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
14214 5' -57.3 NC_003521.1 + 149403 0.66 0.907882
Target:  5'- cAGGCGcaugcgcacggucGCCCUGUGGGCcgggauuugGGUCg--- -3'
miRNA:   3'- aUCCGCa------------CGGGAUACCCG---------CCAGauau -5'
14214 5' -57.3 NC_003521.1 + 30562 0.66 0.904233
Target:  5'- aGGGUGUaGCCCUcgGGGUagggcaGGUCc--- -3'
miRNA:   3'- aUCCGCA-CGGGAuaCCCG------CCAGauau -5'
14214 5' -57.3 NC_003521.1 + 91568 0.66 0.891483
Target:  5'- cAGGUccGCCCacaagGGGCGGUgUGUGg -3'
miRNA:   3'- aUCCGcaCGGGaua--CCCGCCAgAUAU- -5'
14214 5' -57.3 NC_003521.1 + 154253 0.66 0.884775
Target:  5'- -cGGCGUGCCCUGccuccaguucUGGcagaaGGUCUGc- -3'
miRNA:   3'- auCCGCACGGGAU----------ACCcg---CCAGAUau -5'
14214 5' -57.3 NC_003521.1 + 126401 0.66 0.884093
Target:  5'- aGGGCGaaGCCCggguggaUGUGGGCcuuGGUCUGc- -3'
miRNA:   3'- aUCCGCa-CGGG-------AUACCCG---CCAGAUau -5'
14214 5' -57.3 NC_003521.1 + 12372 0.67 0.877851
Target:  5'- cUGGGUgccguuGUGCCaaCUAUgGGGCGGUCaUAUGa -3'
miRNA:   3'- -AUCCG------CACGG--GAUA-CCCGCCAG-AUAU- -5'
14214 5' -57.3 NC_003521.1 + 178805 0.67 0.877851
Target:  5'- gAGGCaUGCCCggcGGGCgGGUCg--- -3'
miRNA:   3'- aUCCGcACGGGauaCCCG-CCAGauau -5'
14214 5' -57.3 NC_003521.1 + 218379 0.67 0.870715
Target:  5'- cAGGCGUGCCgCgugaagcgcGGGCGGUaCUcgGc -3'
miRNA:   3'- aUCCGCACGG-Gaua------CCCGCCA-GAuaU- -5'
14214 5' -57.3 NC_003521.1 + 73000 0.67 0.863371
Target:  5'- -cGGuCGUGCCCg--GGGgGGUCc--- -3'
miRNA:   3'- auCC-GCACGGGauaCCCgCCAGauau -5'
14214 5' -57.3 NC_003521.1 + 176327 0.67 0.853524
Target:  5'- gAGGCGUccguagcgcuuuagGCCCUgaucgGUGGGCGGgUUGUc -3'
miRNA:   3'- aUCCGCA--------------CGGGA-----UACCCGCCaGAUAu -5'
14214 5' -57.3 NC_003521.1 + 176923 0.67 0.840153
Target:  5'- aUGGGCGgggGUCgUG-GGGCGGUCa--- -3'
miRNA:   3'- -AUCCGCa--CGGgAUaCCCGCCAGauau -5'
14214 5' -57.3 NC_003521.1 + 77730 0.69 0.761437
Target:  5'- -cGGCG-GCCUcgGUGGGCGGcgUCUGg- -3'
miRNA:   3'- auCCGCaCGGGa-UACCCGCC--AGAUau -5'
14214 5' -57.3 NC_003521.1 + 101799 0.69 0.742507
Target:  5'- uUGGGCGcgcacgaaGCCCaggGGGCGGUCgcgGUAg -3'
miRNA:   3'- -AUCCGCa-------CGGGauaCCCGCCAGa--UAU- -5'
14214 5' -57.3 NC_003521.1 + 22590 0.73 0.553578
Target:  5'- -cGGCcUGUCCUAccUGGGCGGUCUc-- -3'
miRNA:   3'- auCCGcACGGGAU--ACCCGCCAGAuau -5'
14214 5' -57.3 NC_003521.1 + 64316 1.05 0.005221
Target:  5'- gUAGGCGUGCCCUAUGGGCGGUCUAUAu -3'
miRNA:   3'- -AUCCGCACGGGAUACCCGCCAGAUAU- -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.