miRNA display CGI


Results 1 - 20 of 53 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
23429 3' -53.1 NC_005259.1 + 1226 0.72 0.558996
Target:  5'- aCCGAUCACgaggaCGGCugcaagaccGGCCUC--GGCAUCa -3'
miRNA:   3'- -GGCUAGUG-----GCCG---------CUGGAGuuUCGUAG- -5'
23429 3' -53.1 NC_005259.1 + 1531 0.74 0.426542
Target:  5'- aCGAUCACCGGC-AUCaUCGGGGCcgCg -3'
miRNA:   3'- gGCUAGUGGCCGcUGG-AGUUUCGuaG- -5'
23429 3' -53.1 NC_005259.1 + 2015 0.67 0.821406
Target:  5'- aUCGGguggcgCACCGGC-ACCUCAGuGCGg- -3'
miRNA:   3'- -GGCUa-----GUGGCCGcUGGAGUUuCGUag -5'
23429 3' -53.1 NC_005259.1 + 2048 0.69 0.753091
Target:  5'- gCGGUCACCGGC-ACCgagaCAcGGCGguUCa -3'
miRNA:   3'- gGCUAGUGGCCGcUGGa---GUuUCGU--AG- -5'
23429 3' -53.1 NC_005259.1 + 3164 0.71 0.624211
Target:  5'- aCGGUgAugcCCGGCGAUgUCAAGGuCGUCg -3'
miRNA:   3'- gGCUAgU---GGCCGCUGgAGUUUC-GUAG- -5'
23429 3' -53.1 NC_005259.1 + 3704 0.71 0.624211
Target:  5'- uUGAg-ACCGGCGACCUCuuccGUAUCc -3'
miRNA:   3'- gGCUagUGGCCGCUGGAGuuu-CGUAG- -5'
23429 3' -53.1 NC_005259.1 + 5088 0.72 0.548283
Target:  5'- gCCGGugUCACCGGCGAUCUgcgUAGAccGCGUUg -3'
miRNA:   3'- -GGCU--AGUGGCCGCUGGA---GUUU--CGUAG- -5'
23429 3' -53.1 NC_005259.1 + 5293 0.78 0.284881
Target:  5'- aUCGAgUCACCGGUGGCCUCAcucGaCAUCg -3'
miRNA:   3'- -GGCU-AGUGGCCGCUGGAGUuu-C-GUAG- -5'
23429 3' -53.1 NC_005259.1 + 6516 0.7 0.657031
Target:  5'- aCCGA-CGCCGuGCGcgcgacaaccgGCCUCGGGGCGa- -3'
miRNA:   3'- -GGCUaGUGGC-CGC-----------UGGAGUUUCGUag -5'
23429 3' -53.1 NC_005259.1 + 6709 0.66 0.894774
Target:  5'- aCGAUCaACCGGCagcaGGCaCUCAuccgcAAGCAg- -3'
miRNA:   3'- gGCUAG-UGGCCG----CUG-GAGU-----UUCGUag -5'
23429 3' -53.1 NC_005259.1 + 7583 0.67 0.839308
Target:  5'- gCCGc-CGCCGcCGACCUCAAGGUc-- -3'
miRNA:   3'- -GGCuaGUGGCcGCUGGAGUUUCGuag -5'
23429 3' -53.1 NC_005259.1 + 8059 0.66 0.870108
Target:  5'- gCCGGUCGCCGcCGACaUCGAgaucgugccgcgcuGGCGUg -3'
miRNA:   3'- -GGCUAGUGGCcGCUGgAGUU--------------UCGUAg -5'
23429 3' -53.1 NC_005259.1 + 8365 0.77 0.306924
Target:  5'- aUCGcUCGgCGGCGGCCUC--GGCAUCg -3'
miRNA:   3'- -GGCuAGUgGCCGCUGGAGuuUCGUAG- -5'
23429 3' -53.1 NC_005259.1 + 9536 0.75 0.398652
Target:  5'- gCCgGGUCACCGGagagcugccCGGCCUCGAccGCGUCg -3'
miRNA:   3'- -GG-CUAGUGGCC---------GCUGGAGUUu-CGUAG- -5'
23429 3' -53.1 NC_005259.1 + 9982 0.66 0.894774
Target:  5'- aCCGGUCgagguggccaGCCGGgGACUgauccGCGUCg -3'
miRNA:   3'- -GGCUAG----------UGGCCgCUGGaguuuCGUAG- -5'
23429 3' -53.1 NC_005259.1 + 13519 0.67 0.812155
Target:  5'- gUCGGUCACCGagacuGCGGCCaCcAAGCAguUCg -3'
miRNA:   3'- -GGCUAGUGGC-----CGCUGGaGuUUCGU--AG- -5'
23429 3' -53.1 NC_005259.1 + 14033 0.66 0.880154
Target:  5'- aCGAUCAUCGaGCGGCagc---GCAUCg -3'
miRNA:   3'- gGCUAGUGGC-CGCUGgaguuuCGUAG- -5'
23429 3' -53.1 NC_005259.1 + 17244 0.69 0.721763
Target:  5'- gCCGGUCucacGCUGGCcACCUCAgacaAGGCAg- -3'
miRNA:   3'- -GGCUAG----UGGCCGcUGGAGU----UUCGUag -5'
23429 3' -53.1 NC_005259.1 + 17809 0.67 0.839308
Target:  5'- gCGAg-GCCGGUGAgCUCAgcgAGGcCAUCg -3'
miRNA:   3'- gGCUagUGGCCGCUgGAGU---UUC-GUAG- -5'
23429 3' -53.1 NC_005259.1 + 19380 0.71 0.602349
Target:  5'- gCUGAUCACCGGC--CC-CAAcggcAGCGUCg -3'
miRNA:   3'- -GGCUAGUGGCCGcuGGaGUU----UCGUAG- -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.