miRNA display CGI


Results 1 - 20 of 22 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
23390 5' -54.7 NC_005259.1 + 13048 0.66 0.821221
Target:  5'- uUCGGCCCGUucugcGCGAUG-GUcgAGGAAc- -3'
miRNA:   3'- gAGCCGGGCA-----UGUUGCaCG--UCCUUcg -5'
23390 5' -54.7 NC_005259.1 + 11420 0.66 0.793155
Target:  5'- -gUGGCCgGUGCAACGgggaUGCuuGGGccGCu -3'
miRNA:   3'- gaGCCGGgCAUGUUGC----ACG--UCCuuCG- -5'
23390 5' -54.7 NC_005259.1 + 48484 0.67 0.773611
Target:  5'- gUCGGCCUGUuccuCGACGcGCuugaGGGccGCg -3'
miRNA:   3'- gAGCCGGGCAu---GUUGCaCG----UCCuuCG- -5'
23390 5' -54.7 NC_005259.1 + 60732 0.67 0.76362
Target:  5'- -cCGGCCCGUGuCGggguccauuuGCaGUGCAGucGGCu -3'
miRNA:   3'- gaGCCGGGCAU-GU----------UG-CACGUCcuUCG- -5'
23390 5' -54.7 NC_005259.1 + 17600 0.67 0.76362
Target:  5'- cCUCGGCgCG-AUGACGUG-GGGcGGCg -3'
miRNA:   3'- -GAGCCGgGCaUGUUGCACgUCCuUCG- -5'
23390 5' -54.7 NC_005259.1 + 64808 0.67 0.753499
Target:  5'- cCUCGGCCuCGgcgGCAaugaGCGUGUGGuGAcggacccugcuGGCg -3'
miRNA:   3'- -GAGCCGG-GCa--UGU----UGCACGUC-CU-----------UCG- -5'
23390 5' -54.7 NC_005259.1 + 12018 0.67 0.743257
Target:  5'- -gUGGCCuUGUACG--GUGCGGGcGGCa -3'
miRNA:   3'- gaGCCGG-GCAUGUugCACGUCCuUCG- -5'
23390 5' -54.7 NC_005259.1 + 20538 0.67 0.732905
Target:  5'- -gCuGCCC--GCAGCGUGguGGAucAGCa -3'
miRNA:   3'- gaGcCGGGcaUGUUGCACguCCU--UCG- -5'
23390 5' -54.7 NC_005259.1 + 21908 0.68 0.669116
Target:  5'- aUUGcGCCCGUAcCAGCGcgagGCAGucGAGGCc -3'
miRNA:   3'- gAGC-CGGGCAU-GUUGCa---CGUC--CUUCG- -5'
23390 5' -54.7 NC_005259.1 + 29947 0.68 0.669116
Target:  5'- -gCGGCCCGgucGCGGC-UGguGGGgcgGGCg -3'
miRNA:   3'- gaGCCGGGCa--UGUUGcACguCCU---UCG- -5'
23390 5' -54.7 NC_005259.1 + 50428 0.69 0.658305
Target:  5'- -cCGGCUCGgGCAGCGgUGCGGGcucgGGGUc -3'
miRNA:   3'- gaGCCGGGCaUGUUGC-ACGUCC----UUCG- -5'
23390 5' -54.7 NC_005259.1 + 55304 0.69 0.658305
Target:  5'- uUUGGCCgCGUGCGACGaccacaggGguGGucuuGGCg -3'
miRNA:   3'- gAGCCGG-GCAUGUUGCa-------CguCCu---UCG- -5'
23390 5' -54.7 NC_005259.1 + 47900 0.69 0.657223
Target:  5'- gUCGGCUCGUugAGCGccuugaugGCGucgccgaggcccuGGAAGCc -3'
miRNA:   3'- gAGCCGGGCAugUUGCa-------CGU-------------CCUUCG- -5'
23390 5' -54.7 NC_005259.1 + 22883 0.69 0.636622
Target:  5'- aUCGGUcgcgcgcugcguCUGUACGACGgcaaGCAGGAuGCc -3'
miRNA:   3'- gAGCCG------------GGCAUGUUGCa---CGUCCUuCG- -5'
23390 5' -54.7 NC_005259.1 + 25584 0.69 0.625769
Target:  5'- gUCGGCaCCGUuCAuccuCGuUGCGGGcAGCg -3'
miRNA:   3'- gAGCCG-GGCAuGUu---GC-ACGUCCuUCG- -5'
23390 5' -54.7 NC_005259.1 + 65686 0.7 0.60842
Target:  5'- aCUCGGCCCG-ACgAGCGggccgaGUAGGAcgaggucacgcccaaGGCg -3'
miRNA:   3'- -GAGCCGGGCaUG-UUGCa-----CGUCCU---------------UCG- -5'
23390 5' -54.7 NC_005259.1 + 9149 0.7 0.60409
Target:  5'- gCUCGuGCCCGU-CGACGgcaUGCcGGuGGCa -3'
miRNA:   3'- -GAGC-CGGGCAuGUUGC---ACGuCCuUCG- -5'
23390 5' -54.7 NC_005259.1 + 59139 0.71 0.539873
Target:  5'- gUCGaGCUCG-GCAGCgGUGCcGGGGAGCu -3'
miRNA:   3'- gAGC-CGGGCaUGUUG-CACG-UCCUUCG- -5'
23390 5' -54.7 NC_005259.1 + 23647 0.71 0.529372
Target:  5'- uUCGGCCCGccgacgGCGACG-GCuGGAccgccgaccccgAGCa -3'
miRNA:   3'- gAGCCGGGCa-----UGUUGCaCGuCCU------------UCG- -5'
23390 5' -54.7 NC_005259.1 + 19388 0.71 0.529372
Target:  5'- -cCGGCCCcaacgGCAGCGUcgacccgauGCAGGGAGa -3'
miRNA:   3'- gaGCCGGGca---UGUUGCA---------CGUCCUUCg -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.