miRNA display CGI


Results 1 - 13 of 13 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
7234 3' -57.4 NC_001900.1 + 42358 0.66 0.582368
Target:  5'- aGCGgGGUaguugccgaUGGGCUgCCACCgguagaugucaaguACGUCGCg -3'
miRNA:   3'- aCGCaCUA---------GCCCGA-GGUGG--------------UGCAGUG- -5'
7234 3' -57.4 NC_001900.1 + 10416 0.66 0.563955
Target:  5'- cGCGUGAgCGGGCUCgCAaggaCAUGggcUACu -3'
miRNA:   3'- aCGCACUaGCCCGAG-GUg---GUGCa--GUG- -5'
7234 3' -57.4 NC_001900.1 + 24595 0.66 0.553194
Target:  5'- gGCgGUGGUggacaaggcaUGGGCUCCGCCACu---- -3'
miRNA:   3'- aCG-CACUA----------GCCCGAGGUGGUGcagug -5'
7234 3' -57.4 NC_001900.1 + 28027 0.66 0.531867
Target:  5'- gGUGUaacCGGGUgcggagCCGCCAcCGUCACa -3'
miRNA:   3'- aCGCAcuaGCCCGa-----GGUGGU-GCAGUG- -5'
7234 3' -57.4 NC_001900.1 + 2465 0.67 0.500463
Target:  5'- cUGCGUc--CGGGCUgCCACCgACGUagacCACa -3'
miRNA:   3'- -ACGCAcuaGCCCGA-GGUGG-UGCA----GUG- -5'
7234 3' -57.4 NC_001900.1 + 34740 0.67 0.490175
Target:  5'- gGCGUGGUCGauCUCCAUCGCaUCGa -3'
miRNA:   3'- aCGCACUAGCccGAGGUGGUGcAGUg -5'
7234 3' -57.4 NC_001900.1 + 4992 0.68 0.440325
Target:  5'- aUGCuc-GUCGGGCUCCAgCACGgcgGCg -3'
miRNA:   3'- -ACGcacUAGCCCGAGGUgGUGCag-UG- -5'
7234 3' -57.4 NC_001900.1 + 29649 0.69 0.384514
Target:  5'- gGCGaGcUUGcGGCUgUACCGCGUCACu -3'
miRNA:   3'- aCGCaCuAGC-CCGAgGUGGUGCAGUG- -5'
7234 3' -57.4 NC_001900.1 + 27599 0.69 0.384514
Target:  5'- aGgGUGAacgccuucaUCGGGCugUCCACCAUGUUc- -3'
miRNA:   3'- aCgCACU---------AGCCCG--AGGUGGUGCAGug -5'
7234 3' -57.4 NC_001900.1 + 35407 0.69 0.375678
Target:  5'- gGCGgguacuUGAUCGGaGC-CCGCUgaACGUCGCu -3'
miRNA:   3'- aCGC------ACUAGCC-CGaGGUGG--UGCAGUG- -5'
7234 3' -57.4 NC_001900.1 + 25920 0.7 0.350004
Target:  5'- gGUGUGA--GGGCUU--CCACGUCGCg -3'
miRNA:   3'- aCGCACUagCCCGAGguGGUGCAGUG- -5'
7234 3' -57.4 NC_001900.1 + 24130 0.73 0.211263
Target:  5'- cGC-UGua-GGGCUCCACCugGUCGa -3'
miRNA:   3'- aCGcACuagCCCGAGGUGGugCAGUg -5'
7234 3' -57.4 NC_001900.1 + 6979 1 0.00263
Target:  5'- uUGCGUGA-CGGGCUCCACCACGUCACc -3'
miRNA:   3'- -ACGCACUaGCCCGAGGUGGUGCAGUG- -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.