miRNA display CGI


Results 1 - 20 of 22 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
13419 5' -52.4 NC_003409.1 + 103485 0.66 0.980837
Target:  5'- --uAGCCGCUGCaguaacCGGAUGUAggCg -3'
miRNA:   3'- acuUCGGCGAUGgcu---GCCUGCAUaaG- -5'
13419 5' -52.4 NC_003409.1 + 68061 0.66 0.973455
Target:  5'- cGcGGCCcgcuaccacuGCUACCGGuuUGGGCGUAUg- -3'
miRNA:   3'- aCuUCGG----------CGAUGGCU--GCCUGCAUAag -5'
13419 5' -52.4 NC_003409.1 + 101261 0.66 0.970589
Target:  5'- cUGuuGCCcaaCUGCCGACGGACcUAUc- -3'
miRNA:   3'- -ACuuCGGc--GAUGGCUGCCUGcAUAag -5'
13419 5' -52.4 NC_003409.1 + 109026 0.66 0.970589
Target:  5'- cGAAcccCCGUUGCacaGACaGGugGUGUUCu -3'
miRNA:   3'- aCUUc--GGCGAUGg--CUG-CCugCAUAAG- -5'
13419 5' -52.4 NC_003409.1 + 14056 0.66 0.967507
Target:  5'- -uAAGCCGCccGCUGGCGGACu----- -3'
miRNA:   3'- acUUCGGCGa-UGGCUGCCUGcauaag -5'
13419 5' -52.4 NC_003409.1 + 96859 0.67 0.964204
Target:  5'- gGggGCaCGCUuCUGGCGGagGCGUGc-- -3'
miRNA:   3'- aCuuCG-GCGAuGGCUGCC--UGCAUaag -5'
13419 5' -52.4 NC_003409.1 + 114000 0.67 0.956906
Target:  5'- cUGAAGUCGCUGCUGGa-GACaGUGUa- -3'
miRNA:   3'- -ACUUCGGCGAUGGCUgcCUG-CAUAag -5'
13419 5' -52.4 NC_003409.1 + 19452 0.68 0.944161
Target:  5'- gGggGCCGCUggccuuGCCGcUGcGACGUGg-- -3'
miRNA:   3'- aCuuCGGCGA------UGGCuGC-CUGCAUaag -5'
13419 5' -52.4 NC_003409.1 + 52431 0.68 0.939418
Target:  5'- --uGGCCGCcacGCCugcugGAUGGACGUGUUa -3'
miRNA:   3'- acuUCGGCGa--UGG-----CUGCCUGCAUAAg -5'
13419 5' -52.4 NC_003409.1 + 109530 0.68 0.934423
Target:  5'- gGAAGCCucaGCUggaccacuGCCGGCGGACa----- -3'
miRNA:   3'- aCUUCGG---CGA--------UGGCUGCCUGcauaag -5'
13419 5' -52.4 NC_003409.1 + 15430 0.69 0.905011
Target:  5'- gUGAAGCCugacccaugacaaGCUgACgGGCGGACGgcgUCg -3'
miRNA:   3'- -ACUUCGG-------------CGA-UGgCUGCCUGCauaAG- -5'
13419 5' -52.4 NC_003409.1 + 10020 0.69 0.892388
Target:  5'- ---cGCUGCUGCCGGCGG-CGgggggUCc -3'
miRNA:   3'- acuuCGGCGAUGGCUGCCuGCaua--AG- -5'
13419 5' -52.4 NC_003409.1 + 28361 0.69 0.892387
Target:  5'- cGAuuuuAGCUGCgcugcaaaucGCUGGCGGACGUGUg- -3'
miRNA:   3'- aCU----UCGGCGa---------UGGCUGCCUGCAUAag -5'
13419 5' -52.4 NC_003409.1 + 100273 0.7 0.885391
Target:  5'- uUGAGGCCGCgugugGCCccUGGACuGUGUUUc -3'
miRNA:   3'- -ACUUCGGCGa----UGGcuGCCUG-CAUAAG- -5'
13419 5' -52.4 NC_003409.1 + 68278 0.7 0.885391
Target:  5'- aGggGuuGCUGgCGGCGauGGCGUGUccUCg -3'
miRNA:   3'- aCuuCggCGAUgGCUGC--CUGCAUA--AG- -5'
13419 5' -52.4 NC_003409.1 + 81190 0.71 0.838613
Target:  5'- aGAAGCUGgUGCUGGCG-ACGUcUUCg -3'
miRNA:   3'- aCUUCGGCgAUGGCUGCcUGCAuAAG- -5'
13419 5' -52.4 NC_003409.1 + 12978 0.71 0.812441
Target:  5'- gGAGGCUGCUGCC-ACGGAagGUuacAUUCu -3'
miRNA:   3'- aCUUCGGCGAUGGcUGCCUg-CA---UAAG- -5'
13419 5' -52.4 NC_003409.1 + 67876 0.71 0.803358
Target:  5'- aUGAGGCCGCguuUACCGACGcGCGccAUUUu -3'
miRNA:   3'- -ACUUCGGCG---AUGGCUGCcUGCa-UAAG- -5'
13419 5' -52.4 NC_003409.1 + 43767 0.74 0.684318
Target:  5'- gUGAcaaGGCCGCU-CUGGCGGACGgacacgacgagAUUCa -3'
miRNA:   3'- -ACU---UCGGCGAuGGCUGCCUGCa----------UAAG- -5'
13419 5' -52.4 NC_003409.1 + 113730 0.74 0.673864
Target:  5'- aUGAGGCC-CaGCUGACGGcccaccGCGUGUUCg -3'
miRNA:   3'- -ACUUCGGcGaUGGCUGCC------UGCAUAAG- -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.