miRNA display CGI


Results 1 - 20 of 30 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
27230 3' -61.7 NC_005832.1 + 32297 0.66 0.630157
Target:  5'- uGCCGuggacUCCCC-UCGCcgcUCCUCcGGCCa -3'
miRNA:   3'- uCGGC-----AGGGGcAGCGc--AGGAGcCUGG- -5'
27230 3' -61.7 NC_005832.1 + 41042 0.66 0.620237
Target:  5'- cGGCCGcuuaCCCgGUCGUGguccCCUCcuuuggcaGGGCCc -3'
miRNA:   3'- -UCGGCa---GGGgCAGCGCa---GGAG--------CCUGG- -5'
27230 3' -61.7 NC_005832.1 + 50809 0.66 0.613299
Target:  5'- cGGCCGaUCCaguccuaCCGUCGUGUCCcgucucucccuuuuuUccgcgCGGACCu -3'
miRNA:   3'- -UCGGC-AGG-------GGCAGCGCAGG---------------A-----GCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 12658 0.66 0.610327
Target:  5'- cGCCG-CCCCGUCcacguCGUgCUUGGAg- -3'
miRNA:   3'- uCGGCaGGGGCAGc----GCAgGAGCCUgg -5'
27230 3' -61.7 NC_005832.1 + 486 0.66 0.600431
Target:  5'- cGgCGUCCUgGUCGgGgccCCUgUGGGCCg -3'
miRNA:   3'- uCgGCAGGGgCAGCgCa--GGA-GCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 6454 0.66 0.600431
Target:  5'- cAGCU-UCCCCGcCGCGUCCccuccguucUCGaGGCa -3'
miRNA:   3'- -UCGGcAGGGGCaGCGCAGG---------AGC-CUGg -5'
27230 3' -61.7 NC_005832.1 + 692 0.66 0.590558
Target:  5'- cGGCCGgggagCUCGUgagcaggGUGUCCUCGGACg -3'
miRNA:   3'- -UCGGCag---GGGCAg------CGCAGGAGCCUGg -5'
27230 3' -61.7 NC_005832.1 + 41491 0.66 0.590558
Target:  5'- cGUCGaCCCCGUCGUcaucgggcUCCUCGuACCc -3'
miRNA:   3'- uCGGCaGGGGCAGCGc-------AGGAGCcUGG- -5'
27230 3' -61.7 NC_005832.1 + 54637 0.66 0.590558
Target:  5'- cGgCGUCCCUcuUgGgGUUCUCGGACUg -3'
miRNA:   3'- uCgGCAGGGGc-AgCgCAGGAGCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 100392 0.66 0.580713
Target:  5'- uGGCCGUaCUCGUCGuCGUCUUCuucguuccuGGCCg -3'
miRNA:   3'- -UCGGCAgGGGCAGC-GCAGGAGc--------CUGG- -5'
27230 3' -61.7 NC_005832.1 + 23827 0.67 0.570903
Target:  5'- uGGCCGUgaCUgCGUCcaugcCGUCCUCGGucuuuACCa -3'
miRNA:   3'- -UCGGCA--GGgGCAGc----GCAGGAGCC-----UGG- -5'
27230 3' -61.7 NC_005832.1 + 41559 0.67 0.560159
Target:  5'- aGGCCG-CCgCCGUCagggagGCGcCCUCGGuagucauGCCc -3'
miRNA:   3'- -UCGGCaGG-GGCAG------CGCaGGAGCC-------UGG- -5'
27230 3' -61.7 NC_005832.1 + 72778 0.67 0.55141
Target:  5'- gGGCCGUcgggCCCCG-CGgGcCCaUCgGGACCc -3'
miRNA:   3'- -UCGGCA----GGGGCaGCgCaGG-AG-CCUGG- -5'
27230 3' -61.7 NC_005832.1 + 11493 0.67 0.55141
Target:  5'- cAGCagcUCCCUGUacgggGUGUCUUCGGACa -3'
miRNA:   3'- -UCGgc-AGGGGCAg----CGCAGGAGCCUGg -5'
27230 3' -61.7 NC_005832.1 + 103419 0.67 0.55141
Target:  5'- cAGCCGUCUCa---GaGUCCUUGGACUc -3'
miRNA:   3'- -UCGGCAGGGgcagCgCAGGAGCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 89575 0.68 0.513087
Target:  5'- gGGCCGUCagCCUGUCGagcuUCCUCGuGAUg -3'
miRNA:   3'- -UCGGCAG--GGGCAGCgc--AGGAGC-CUGg -5'
27230 3' -61.7 NC_005832.1 + 79463 0.68 0.513087
Target:  5'- cGGCUuuGUCCCCGgUGgGUUCUgGGGCUu -3'
miRNA:   3'- -UCGG--CAGGGGCaGCgCAGGAgCCUGG- -5'
27230 3' -61.7 NC_005832.1 + 10734 0.68 0.485077
Target:  5'- uGCgGUCCCCG--GCGUCCUgGucCCa -3'
miRNA:   3'- uCGgCAGGGGCagCGCAGGAgCcuGG- -5'
27230 3' -61.7 NC_005832.1 + 91635 0.68 0.466815
Target:  5'- uGCCGUCCCCGccacCGCcucccacaCCUUGGAgCa -3'
miRNA:   3'- uCGGCAGGGGCa---GCGca------GGAGCCUgG- -5'
27230 3' -61.7 NC_005832.1 + 92582 0.68 0.465911
Target:  5'- cGUCGUCCUCGUCGUccaccaccuccggGUCCgaGGACg -3'
miRNA:   3'- uCGGCAGGGGCAGCG-------------CAGGagCCUGg -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.