miRNA display CGI


Results 1 - 20 of 43 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
11447 3' -61 NC_003085.1 + 114 0.66 0.429013
Target:  5'- gGCGGcGGGCccccaauguggggagAgGGCGGGACggaGCUgGGAg -3'
miRNA:   3'- gCGCC-CCCG---------------UgCCGCUUUG---CGAgCCU- -5'
11447 3' -61 NC_003085.1 + 198 0.66 0.42442
Target:  5'- aGUGGacgcGGCGCGGCGAacucagucgggacGACGUcaugCGGAc -3'
miRNA:   3'- gCGCCc---CCGUGCCGCU-------------UUGCGa---GCCU- -5'
11447 3' -61 NC_003085.1 + 288 0.7 0.235756
Target:  5'- aGCGGcGGCaggaccggGCGGCcuccgaccucaugGAGAUGCUCGGAg -3'
miRNA:   3'- gCGCCcCCG--------UGCCG-------------CUUUGCGAGCCU- -5'
11447 3' -61 NC_003085.1 + 2470 0.7 0.23048
Target:  5'- aGCcuGGGGagaaGUugGGCGAAACGCUCa-- -3'
miRNA:   3'- gCG--CCCC----CGugCCGCUUUGCGAGccu -5'
11447 3' -61 NC_003085.1 + 2786 0.74 0.119727
Target:  5'- aGCGGcGGCgcuccaggcgGCGGCGAAGCGcCUCGGc -3'
miRNA:   3'- gCGCCcCCG----------UGCCGCUUUGC-GAGCCu -5'
11447 3' -61 NC_003085.1 + 3098 0.67 0.339887
Target:  5'- cCGCGGaaGGCGCGGCuuGAggcGAUGCUCGa- -3'
miRNA:   3'- -GCGCCc-CCGUGCCG--CU---UUGCGAGCcu -5'
11447 3' -61 NC_003085.1 + 3678 0.66 0.425336
Target:  5'- gGCaGGGacGGCGCGGCGAGuccugacgccGCGUcCGGu -3'
miRNA:   3'- gCG-CCC--CCGUGCCGCUU----------UGCGaGCCu -5'
11447 3' -61 NC_003085.1 + 4107 0.66 0.416227
Target:  5'- cCGCuGGaGUugGGCGccGCGCUgGGAc -3'
miRNA:   3'- -GCGcCCcCGugCCGCuuUGCGAgCCU- -5'
11447 3' -61 NC_003085.1 + 5262 0.68 0.316798
Target:  5'- uGCGGGcGCGCGGCaguACGCgagcaCGGGc -3'
miRNA:   3'- gCGCCCcCGUGCCGcuuUGCGa----GCCU- -5'
11447 3' -61 NC_003085.1 + 5268 0.67 0.355945
Target:  5'- gCGUGGuGGGUGCGcGaCGGGACGCccUGGAg -3'
miRNA:   3'- -GCGCC-CCCGUGC-C-GCUUUGCGa-GCCU- -5'
11447 3' -61 NC_003085.1 + 7468 0.69 0.254707
Target:  5'- cCGCcGGGGCaggaacACGGCGAGGCGUgucacUgGGAa -3'
miRNA:   3'- -GCGcCCCCG------UGCCGCUUUGCG-----AgCCU- -5'
11447 3' -61 NC_003085.1 + 10156 0.66 0.416227
Target:  5'- gGCGGGGaGUACcGCGAGGacCGggCGGAc -3'
miRNA:   3'- gCGCCCC-CGUGcCGCUUU--GCgaGCCU- -5'
11447 3' -61 NC_003085.1 + 10974 0.7 0.236349
Target:  5'- gGCGGauGCcCGGCGAGACGUUgGGGa -3'
miRNA:   3'- gCGCCccCGuGCCGCUUUGCGAgCCU- -5'
11447 3' -61 NC_003085.1 + 12020 0.72 0.156407
Target:  5'- gGUGGcGGGCGCGGgGuuGGCGCUCGc- -3'
miRNA:   3'- gCGCC-CCCGUGCCgCu-UUGCGAGCcu -5'
11447 3' -61 NC_003085.1 + 12291 0.67 0.339887
Target:  5'- aCGCGacGGCGCGGUGGucCGCUgGGu -3'
miRNA:   3'- -GCGCccCCGUGCCGCUuuGCGAgCCu -5'
11447 3' -61 NC_003085.1 + 13922 0.68 0.323598
Target:  5'- gCGCGuuucggacGGGGCGCGcgccgaagaagaaGCGGAGCG-UCGGAc -3'
miRNA:   3'- -GCGC--------CCCCGUGC-------------CGCUUUGCgAGCCU- -5'
11447 3' -61 NC_003085.1 + 16326 0.66 0.434563
Target:  5'- -cCGGGaGUugGGCGAAGCGCUgucucUGGc -3'
miRNA:   3'- gcGCCCcCGugCCGCUUUGCGA-----GCCu -5'
11447 3' -61 NC_003085.1 + 19058 0.7 0.242342
Target:  5'- cCGCGGc-GCGCGGCGGAgcagGCGC-CGGGc -3'
miRNA:   3'- -GCGCCccCGUGCCGCUU----UGCGaGCCU- -5'
11447 3' -61 NC_003085.1 + 19214 0.78 0.058527
Target:  5'- gGCGGGGGCugGGCGccGCGCaaGGc -3'
miRNA:   3'- gCGCCCCCGugCCGCuuUGCGagCCu -5'
11447 3' -61 NC_003085.1 + 19334 0.69 0.259796
Target:  5'- uGCuGGGGCcgGCGGCGGAugGCguccguguagaGGAg -3'
miRNA:   3'- gCGcCCCCG--UGCCGCUUugCGag---------CCU- -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.