miRNA display CGI


Results 1 - 20 of 21 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
28026 3' -53.8 NC_005887.1 + 18841 0.66 0.736022
Target:  5'- cGCGuUCGUCagcgcGGCCGAACACGUc -3'
miRNA:   3'- cUGC-AGCAGgccaaCUGGCUUGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 34986 0.66 0.725273
Target:  5'- cGGCGUUGUCguCGGUcugcagcgcGAUCGAAUACGUu -3'
miRNA:   3'- -CUGCAGCAG--GCCAa--------CUGGCUUGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 32509 0.66 0.732808
Target:  5'- cGCGgCGUUCaGGUUGGCCGcgcugaccggcugcGACGCGUu -3'
miRNA:   3'- cUGCaGCAGG-CCAACUGGC--------------UUGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 40434 0.66 0.757184
Target:  5'- uGACGcCGcCCGGcUG-CCGAaagaACGCGUa -3'
miRNA:   3'- -CUGCaGCaGGCCaACuGGCU----UGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 39447 0.66 0.757184
Target:  5'- cGGCGUCGUUCGcGgcGGCCG-ACGUGUc -3'
miRNA:   3'- -CUGCAGCAGGC-CaaCUGGCuUGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 41213 0.66 0.736022
Target:  5'- cGCGUCGUCgUGcccgUGACCGAGCuCGa -3'
miRNA:   3'- cUGCAGCAG-GCca--ACUGGCUUGuGCa -5'
28026 3' -53.8 NC_005887.1 + 7603 0.67 0.7035
Target:  5'- aGCGgCG-CCGGUUGAUCGAugGgCGg -3'
miRNA:   3'- cUGCaGCaGGCCAACUGGCUugU-GCa -5'
28026 3' -53.8 NC_005887.1 + 11715 0.67 0.714428
Target:  5'- aGCGUCGcaucaacgaUCCGGaucuGCCGGACGCGc -3'
miRNA:   3'- cUGCAGC---------AGGCCaac-UGGCUUGUGCa -5'
28026 3' -53.8 NC_005887.1 + 33879 0.67 0.714428
Target:  5'- -gUGUCGUCgccgagCGGUUGcGCCGGGCGCu- -3'
miRNA:   3'- cuGCAGCAG------GCCAAC-UGGCUUGUGca -5'
28026 3' -53.8 NC_005887.1 + 6477 0.67 0.692499
Target:  5'- gGGCGcggCGUCgCGGUgucuGCCGAGCGCa- -3'
miRNA:   3'- -CUGCa--GCAG-GCCAac--UGGCUUGUGca -5'
28026 3' -53.8 NC_005887.1 + 26838 0.67 0.692499
Target:  5'- cGCGaCGUCCGGaaacUGGCCGGcguccaucugacGCGCGg -3'
miRNA:   3'- cUGCaGCAGGCCa---ACUGGCU------------UGUGCa -5'
28026 3' -53.8 NC_005887.1 + 10420 0.67 0.670328
Target:  5'- aGGCGUUacgGUCgCGGUgcUGACCGAcgGCGCa- -3'
miRNA:   3'- -CUGCAG---CAG-GCCA--ACUGGCU--UGUGca -5'
28026 3' -53.8 NC_005887.1 + 24765 0.67 0.691395
Target:  5'- cGACGUuguccagaucccaCGUCCGGUaguagauugugcUGGCCGAcaGCGg -3'
miRNA:   3'- -CUGCA-------------GCAGGCCA------------ACUGGCUugUGCa -5'
28026 3' -53.8 NC_005887.1 + 17911 0.68 0.648009
Target:  5'- cGGCGgCGUCacaGGUUGGaCGGACGCGc -3'
miRNA:   3'- -CUGCaGCAGg--CCAACUgGCUUGUGCa -5'
28026 3' -53.8 NC_005887.1 + 14696 0.68 0.636821
Target:  5'- gGGC-UCGUCgCGGcgggcgGGCCGGGCGCGg -3'
miRNA:   3'- -CUGcAGCAG-GCCaa----CUGGCUUGUGCa -5'
28026 3' -53.8 NC_005887.1 + 37255 0.7 0.537101
Target:  5'- -uCGUCGUCCaGGUaGAUCGAcagcccGCACGg -3'
miRNA:   3'- cuGCAGCAGG-CCAaCUGGCU------UGUGCa -5'
28026 3' -53.8 NC_005887.1 + 15453 0.7 0.526293
Target:  5'- cGACGUCG-CCGcGaUGACCGcgcaccaaGACGCGUu -3'
miRNA:   3'- -CUGCAGCaGGC-CaACUGGC--------UUGUGCA- -5'
28026 3' -53.8 NC_005887.1 + 3723 0.71 0.443311
Target:  5'- cGAUGUUGUUCGcGUUGAacCCGAACugGc -3'
miRNA:   3'- -CUGCAGCAGGC-CAACU--GGCUUGugCa -5'
28026 3' -53.8 NC_005887.1 + 39309 0.73 0.368213
Target:  5'- -uCGUCGUUCGucaUUGGCCGAGCAUGg -3'
miRNA:   3'- cuGCAGCAGGCc--AACUGGCUUGUGCa -5'
28026 3' -53.8 NC_005887.1 + 36291 0.86 0.054718
Target:  5'- cGAC-UCGUCCGGUUGGCCGAucuGCGCGg -3'
miRNA:   3'- -CUGcAGCAGGCCAACUGGCU---UGUGCa -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.