miRNA display CGI


Results 1 - 20 of 54 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
26609 5' -57.5 NC_005357.1 + 189 0.7 0.293091
Target:  5'- -gCCGGCGucaUCCCCGCCaucaGCAUCAUgGu -3'
miRNA:   3'- cgGGUCGU---AGGGGCGGc---UGUAGUAgC- -5'
26609 5' -57.5 NC_005357.1 + 818 0.71 0.278709
Target:  5'- cGCCCAGC--CCuuGCCGAa--CGUCGg -3'
miRNA:   3'- -CGGGUCGuaGGggCGGCUguaGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 4304 0.69 0.339683
Target:  5'- cGCCCAuGUAggacagCuuGCCGGCGUCAUCc -3'
miRNA:   3'- -CGGGU-CGUag----GggCGGCUGUAGUAGc -5'
26609 5' -57.5 NC_005357.1 + 4859 0.66 0.498478
Target:  5'- cGgCCAGCuuccaAUCCUCGCCGGCGagccacgcaaUCAUgCGu -3'
miRNA:   3'- -CgGGUCG-----UAGGGGCGGCUGU----------AGUA-GC- -5'
26609 5' -57.5 NC_005357.1 + 5105 0.73 0.21514
Target:  5'- gGCCCAGCGUCCggugCgGCUGGCGcCGUUGa -3'
miRNA:   3'- -CGGGUCGUAGG----GgCGGCUGUaGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 5547 0.69 0.382445
Target:  5'- cGCCCAG-GUCgCCCGCC-ACggUAUCGa -3'
miRNA:   3'- -CGGGUCgUAG-GGGCGGcUGuaGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 5914 0.73 0.209518
Target:  5'- cGUCCGGCAUCUuuucgCCGCUGGCggCAUCc -3'
miRNA:   3'- -CGGGUCGUAGG-----GGCGGCUGuaGUAGc -5'
26609 5' -57.5 NC_005357.1 + 6136 0.67 0.48715
Target:  5'- uGCCCuuccaucAGCA-CCCacuCGCCGcCGUCAUCu -3'
miRNA:   3'- -CGGG-------UCGUaGGG---GCGGCuGUAGUAGc -5'
26609 5' -57.5 NC_005357.1 + 6396 0.72 0.25164
Target:  5'- cGCCgCGGCGcCCUCGgUGAUGUCGUCGa -3'
miRNA:   3'- -CGG-GUCGUaGGGGCgGCUGUAGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 7114 0.66 0.498478
Target:  5'- uCCaCGGUuUCCCCGCUcACGUCcgCGa -3'
miRNA:   3'- cGG-GUCGuAGGGGCGGcUGUAGuaGC- -5'
26609 5' -57.5 NC_005357.1 + 7502 0.66 0.498478
Target:  5'- cGCCCAGCAggUUgCCGaggaUGGCGUUGUCu -3'
miRNA:   3'- -CGGGUCGU--AGgGGCg---GCUGUAGUAGc -5'
26609 5' -57.5 NC_005357.1 + 7768 0.68 0.428643
Target:  5'- aGCaCCGGCGcgaUCUgCGCCGGCGUCcacccuUCGc -3'
miRNA:   3'- -CG-GGUCGU---AGGgGCGGCUGUAGu-----AGC- -5'
26609 5' -57.5 NC_005357.1 + 7787 0.67 0.464869
Target:  5'- cGCCCuGCgaggcgaugggcauGUCCCacuCGCUGAUAUgGUCGa -3'
miRNA:   3'- -CGGGuCG--------------UAGGG---GCGGCUGUAgUAGC- -5'
26609 5' -57.5 NC_005357.1 + 8180 0.66 0.498478
Target:  5'- cGCCCGGa--UgCUGCCGGCGauuUCAUCGc -3'
miRNA:   3'- -CGGGUCguaGgGGCGGCUGU---AGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 9890 0.77 0.114636
Target:  5'- cGCCggcggCAGCAUCCUgGCCGGCAUCAcCa -3'
miRNA:   3'- -CGG-----GUCGUAGGGgCGGCUGUAGUaGc -5'
26609 5' -57.5 NC_005357.1 + 10925 0.66 0.551314
Target:  5'- gGCCCAGCAgca-CGCCGGCggCAa-- -3'
miRNA:   3'- -CGGGUCGUagggGCGGCUGuaGUagc -5'
26609 5' -57.5 NC_005357.1 + 11418 0.66 0.551314
Target:  5'- cGgCCGGCAagCCCGUgGACAg-GUCGc -3'
miRNA:   3'- -CgGGUCGUagGGGCGgCUGUagUAGC- -5'
26609 5' -57.5 NC_005357.1 + 11533 0.68 0.391417
Target:  5'- gGCCCugcgagcgGGCAUCCugauaggacugcCCGCCGG--UCAUCGa -3'
miRNA:   3'- -CGGG--------UCGUAGG------------GGCGGCUguAGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 12291 0.74 0.178388
Target:  5'- gGCCCAGCGUgCCgGCuaCGGCggCGUCGa -3'
miRNA:   3'- -CGGGUCGUAgGGgCG--GCUGuaGUAGC- -5'
26609 5' -57.5 NC_005357.1 + 12628 0.69 0.381556
Target:  5'- cGCUCGGCAUCgCUGCUGcCGUCcuuuggcGUCGg -3'
miRNA:   3'- -CGGGUCGUAGgGGCGGCuGUAG-------UAGC- -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.