miRNA display CGI


Results 1 - 20 of 32 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
19689 3' -50 NC_004686.1 + 42214 0.66 0.954033
Target:  5'- gCGCuccauGCGGCcCCACAuGUCGuAGAgCCAg -3'
miRNA:   3'- -GCGu----UGCCGaGGUGU-UAGC-UUUaGGU- -5'
19689 3' -50 NC_004686.1 + 51867 0.66 0.949497
Target:  5'- cCGCccUGGCcuUCCGCAGUCGu--UCCu -3'
miRNA:   3'- -GCGuuGCCG--AGGUGUUAGCuuuAGGu -5'
19689 3' -50 NC_004686.1 + 23159 0.66 0.944673
Target:  5'- gGCAACGGCaUCC-CAAUC--AGUCaCAu -3'
miRNA:   3'- gCGUUGCCG-AGGuGUUAGcuUUAG-GU- -5'
19689 3' -50 NC_004686.1 + 46352 0.66 0.943169
Target:  5'- uCGCcGCGGCgUCCGCGacauuggacaaauaGUCGGugagagacuGUCCAg -3'
miRNA:   3'- -GCGuUGCCG-AGGUGU--------------UAGCUu--------UAGGU- -5'
19689 3' -50 NC_004686.1 + 29653 0.66 0.939557
Target:  5'- uCGCcGCGGaaCCACGacauGUCGAGGUUCc -3'
miRNA:   3'- -GCGuUGCCgaGGUGU----UAGCUUUAGGu -5'
19689 3' -50 NC_004686.1 + 13930 0.66 0.939557
Target:  5'- gGCGA-GGUUCCACAGaUCGGugguGAUCUg -3'
miRNA:   3'- gCGUUgCCGAGGUGUU-AGCU----UUAGGu -5'
19689 3' -50 NC_004686.1 + 3388 0.66 0.934147
Target:  5'- aGUGGCGGgaUCCGCGguaucuGUCGAAGUCg- -3'
miRNA:   3'- gCGUUGCCg-AGGUGU------UAGCUUUAGgu -5'
19689 3' -50 NC_004686.1 + 7627 0.66 0.932465
Target:  5'- uCGCGAgGGCUUCugugaguacagcacGCAAcUCGggGUUCAc -3'
miRNA:   3'- -GCGUUgCCGAGG--------------UGUU-AGCuuUAGGU- -5'
19689 3' -50 NC_004686.1 + 30759 0.67 0.928439
Target:  5'- gGCGACaaGGCUugCCGCAugauGUUGAuGUCCAu -3'
miRNA:   3'- gCGUUG--CCGA--GGUGU----UAGCUuUAGGU- -5'
19689 3' -50 NC_004686.1 + 15589 0.67 0.922434
Target:  5'- aCGUGGCGGCgUCGCAAcCGguGUCCc -3'
miRNA:   3'- -GCGUUGCCGaGGUGUUaGCuuUAGGu -5'
19689 3' -50 NC_004686.1 + 24525 0.67 0.922434
Target:  5'- gGCGACGGUgCUGCGGUCGAAu---- -3'
miRNA:   3'- gCGUUGCCGaGGUGUUAGCUUuaggu -5'
19689 3' -50 NC_004686.1 + 1409 0.67 0.916132
Target:  5'- gGCGGauGCUCCACuguUCGGGA-CCGu -3'
miRNA:   3'- gCGUUgcCGAGGUGuu-AGCUUUaGGU- -5'
19689 3' -50 NC_004686.1 + 630 0.67 0.902643
Target:  5'- uCGgAGuCGGCUCCGa---CGGAGUCCGg -3'
miRNA:   3'- -GCgUU-GCCGAGGUguuaGCUUUAGGU- -5'
19689 3' -50 NC_004686.1 + 39367 0.68 0.863932
Target:  5'- uGUAGCGGCgCCACGAguUCGGAGacgugCCu -3'
miRNA:   3'- gCGUUGCCGaGGUGUU--AGCUUUa----GGu -5'
19689 3' -50 NC_004686.1 + 16686 0.69 0.855381
Target:  5'- uGUAGCGGCggaugaacgaaaUCCACucAAUCGAcugcucacgAGUCCAa -3'
miRNA:   3'- gCGUUGCCG------------AGGUG--UUAGCU---------UUAGGU- -5'
19689 3' -50 NC_004686.1 + 54914 0.69 0.846579
Target:  5'- gCGCGGCGGCguacCCAUAAa-GAAcgCCAa -3'
miRNA:   3'- -GCGUUGCCGa---GGUGUUagCUUuaGGU- -5'
19689 3' -50 NC_004686.1 + 7975 0.69 0.837535
Target:  5'- gGCAGCGGCUCCcCGGaCG-AAUCg- -3'
miRNA:   3'- gCGUUGCCGAGGuGUUaGCuUUAGgu -5'
19689 3' -50 NC_004686.1 + 42281 0.69 0.837535
Target:  5'- uGCGcCGGCcCCGaauCAuUCGAGAUCCAc -3'
miRNA:   3'- gCGUuGCCGaGGU---GUuAGCUUUAGGU- -5'
19689 3' -50 NC_004686.1 + 45618 0.69 0.825433
Target:  5'- gCGCGGCGGCUuucgucuucgcagcCCACGuAUCGAGcuugCCGu -3'
miRNA:   3'- -GCGUUGCCGA--------------GGUGU-UAGCUUua--GGU- -5'
19689 3' -50 NC_004686.1 + 37198 0.7 0.809052
Target:  5'- uCGCccacuuCGGCUUCGCGAUCGucGUCUc -3'
miRNA:   3'- -GCGuu----GCCGAGGUGUUAGCuuUAGGu -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.