miRNA display CGI


Results 1 - 20 of 26 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
18738 3' -56.6 NC_004682.1 + 40656 1.1 0.000629
Target:  5'- gGCAGACAUCGGCUCCGAGGUCGACCAu -3'
miRNA:   3'- -CGUCUGUAGCCGAGGCUCCAGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 12958 0.72 0.301208
Target:  5'- cGCGGACAUCGcggcgcGUUCuCGGGGuaccUCGGCCAg -3'
miRNA:   3'- -CGUCUGUAGC------CGAG-GCUCC----AGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 12657 0.72 0.324124
Target:  5'- cGUAGACGaacUCGGCUggaCCGAGGgCGuCCAc -3'
miRNA:   3'- -CGUCUGU---AGCCGA---GGCUCCaGCuGGU- -5'
18738 3' -56.6 NC_004682.1 + 41084 0.7 0.38252
Target:  5'- cCAGACgGUCGGCUUCGucgcgaucAGGUCG-CCGa -3'
miRNA:   3'- cGUCUG-UAGCCGAGGC--------UCCAGCuGGU- -5'
18738 3' -56.6 NC_004682.1 + 46087 0.7 0.418892
Target:  5'- cGCAGuCGUCGGCUUCGGcguGGuacUCGAuCCAc -3'
miRNA:   3'- -CGUCuGUAGCCGAGGCU---CC---AGCU-GGU- -5'
18738 3' -56.6 NC_004682.1 + 28269 0.69 0.428308
Target:  5'- aGCcu-CAUCGGCUUCGGGGcCGGCg- -3'
miRNA:   3'- -CGucuGUAGCCGAGGCUCCaGCUGgu -5'
18738 3' -56.6 NC_004682.1 + 42448 0.69 0.467177
Target:  5'- cGUGGuACAUggggaugaacUGGCUggCCGGGGUCGGCCu -3'
miRNA:   3'- -CGUC-UGUA----------GCCGA--GGCUCCAGCUGGu -5'
18738 3' -56.6 NC_004682.1 + 16317 0.69 0.477178
Target:  5'- uGCGGA-GUCuGGCcgaaGAGGUCGACCAc -3'
miRNA:   3'- -CGUCUgUAG-CCGagg-CUCCAGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 16992 0.68 0.487283
Target:  5'- -aAGACggCGGuCUCCGGGGUCuucgagcagGGCCu -3'
miRNA:   3'- cgUCUGuaGCC-GAGGCUCCAG---------CUGGu -5'
18738 3' -56.6 NC_004682.1 + 31253 0.68 0.497488
Target:  5'- aGCAGACG--GGCUgCGAGGaUCGGguCCAu -3'
miRNA:   3'- -CGUCUGUagCCGAgGCUCC-AGCU--GGU- -5'
18738 3' -56.6 NC_004682.1 + 11527 0.68 0.507788
Target:  5'- aGCGGAag-CGGCUC--AGcGUCGACCAc -3'
miRNA:   3'- -CGUCUguaGCCGAGgcUC-CAGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 614 0.68 0.522356
Target:  5'- cGCGGGCuggaucugugagAUCGGUugguccgguUgccucacccaggcgaCCGAGGUCGACCAc -3'
miRNA:   3'- -CGUCUG------------UAGCCG---------A---------------GGCUCCAGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 24342 0.68 0.539199
Target:  5'- gGCAGAgcUgGGCUgCGuGGUCGACg- -3'
miRNA:   3'- -CGUCUguAgCCGAgGCuCCAGCUGgu -5'
18738 3' -56.6 NC_004682.1 + 22350 0.67 0.560504
Target:  5'- cGCAGGUGUCGGCgcggugacccaUCCGGGGUUccuCCAg -3'
miRNA:   3'- -CGUCUGUAGCCG-----------AGGCUCCAGcu-GGU- -5'
18738 3' -56.6 NC_004682.1 + 40147 0.67 0.592864
Target:  5'- gGCcGGCGUUGGUggccCCGAGGUacacaGGCCc -3'
miRNA:   3'- -CGuCUGUAGCCGa---GGCUCCAg----CUGGu -5'
18738 3' -56.6 NC_004682.1 + 7660 0.67 0.592864
Target:  5'- gGUAGGCAU-GGC--CGAGGUCG-CCAa -3'
miRNA:   3'- -CGUCUGUAgCCGagGCUCCAGCuGGU- -5'
18738 3' -56.6 NC_004682.1 + 32870 0.67 0.592864
Target:  5'- cGUGGACGccCaGCUCCGucGGGUCGACg- -3'
miRNA:   3'- -CGUCUGUa-GcCGAGGC--UCCAGCUGgu -5'
18738 3' -56.6 NC_004682.1 + 31924 0.66 0.603728
Target:  5'- cGCAGACgcgGUUGGCUcucucCCGAc-UCGACCAg -3'
miRNA:   3'- -CGUCUG---UAGCCGA-----GGCUccAGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 1163 0.66 0.603728
Target:  5'- aGCAGcCuccUCGuCUCCGAGGgUGACCGc -3'
miRNA:   3'- -CGUCuGu--AGCcGAGGCUCCaGCUGGU- -5'
18738 3' -56.6 NC_004682.1 + 12721 0.66 0.614614
Target:  5'- -aGGACAaCGuGCUCCGc-GUCGGCCu -3'
miRNA:   3'- cgUCUGUaGC-CGAGGCucCAGCUGGu -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.