miRNA display CGI


Results 1 - 20 of 23 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
24877 3' -57.1 NC_005284.1 + 1713 0.66 0.601079
Target:  5'- uGCGuuGcGCCGCGAUUCUGGGUGCcCGa -3'
miRNA:   3'- uUGUu-C-CGGUGCUGAGGCUCGCGuGU- -5'
24877 3' -57.1 NC_005284.1 + 7069 0.66 0.590096
Target:  5'- gAGCAcGGCCuucuGCGcACg-CGAGCGCGCGu -3'
miRNA:   3'- -UUGUuCCGG----UGC-UGagGCUCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 43623 0.66 0.579149
Target:  5'- cGCGGcGGCCGCGGCg-CGAGCuGCGuCAg -3'
miRNA:   3'- uUGUU-CCGGUGCUGagGCUCG-CGU-GU- -5'
24877 3' -57.1 NC_005284.1 + 18810 0.66 0.556311
Target:  5'- cAACGucGGGCCGugguuccCGGCgaaggggCCGGGCGUGCAg -3'
miRNA:   3'- -UUGU--UCCGGU-------GCUGa------GGCUCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 47792 0.67 0.535878
Target:  5'- cGGCGAGcGCCAUG---UCGAGCGCGCc -3'
miRNA:   3'- -UUGUUC-CGGUGCugaGGCUCGCGUGu -5'
24877 3' -57.1 NC_005284.1 + 21975 0.67 0.535878
Target:  5'- cGCAGuccGGCCuaaGACUCCGGGCuGCGa- -3'
miRNA:   3'- uUGUU---CCGGug-CUGAGGCUCG-CGUgu -5'
24877 3' -57.1 NC_005284.1 + 18027 0.67 0.535878
Target:  5'- cGACAcGGUCACG-CUcgCCGAGCGCu-- -3'
miRNA:   3'- -UUGUuCCGGUGCuGA--GGCUCGCGugu -5'
24877 3' -57.1 NC_005284.1 + 38576 0.67 0.525229
Target:  5'- gAGCGAgacGGCCGuuCGg--CCGAGCGCACGc -3'
miRNA:   3'- -UUGUU---CCGGU--GCugaGGCUCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 29818 0.67 0.514661
Target:  5'- -gUAAGGgUGCGGCUCCaagggagacgcgGAGCGCAUg -3'
miRNA:   3'- uuGUUCCgGUGCUGAGG------------CUCGCGUGu -5'
24877 3' -57.1 NC_005284.1 + 44101 0.67 0.50418
Target:  5'- aAGCGAGGCCcgcCGugUcgaucgcgcCCGcGGCGCGCAc -3'
miRNA:   3'- -UUGUUCCGGu--GCugA---------GGC-UCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 13726 0.67 0.50418
Target:  5'- uGGgGAGGCaCGCGGCgccCCGcgagaaacgucGGCGCGCAg -3'
miRNA:   3'- -UUgUUCCG-GUGCUGa--GGC-----------UCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 43241 0.67 0.50418
Target:  5'- -uCAGGGCCGCGACUUUuucuGCGUccGCAa -3'
miRNA:   3'- uuGUUCCGGUGCUGAGGcu--CGCG--UGU- -5'
24877 3' -57.1 NC_005284.1 + 1260 0.67 0.493792
Target:  5'- ----cGGCCAUagcaACUCCGGGCGCGgAa -3'
miRNA:   3'- uuguuCCGGUGc---UGAGGCUCGCGUgU- -5'
24877 3' -57.1 NC_005284.1 + 31216 0.67 0.493792
Target:  5'- uAGCAucGCCGCGACguugCCGAuGCGCu-- -3'
miRNA:   3'- -UUGUucCGGUGCUGa---GGCU-CGCGugu -5'
24877 3' -57.1 NC_005284.1 + 6814 0.68 0.473319
Target:  5'- cGGCGAGGCCgaggggGCGAUUcgcaCCGAguugGCGCGCGc -3'
miRNA:   3'- -UUGUUCCGG------UGCUGA----GGCU----CGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 37733 0.68 0.473319
Target:  5'- --aAAGGCCGCGcuuaUCCGAgaggaaaucccGCGCGCGg -3'
miRNA:   3'- uugUUCCGGUGCug--AGGCU-----------CGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 8639 0.68 0.463244
Target:  5'- cAAUgcGGUgCGCGACggCGGGCGCACAg -3'
miRNA:   3'- -UUGuuCCG-GUGCUGagGCUCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 44783 0.68 0.463244
Target:  5'- cGCAAGGCCGCGG-UCCGucucggccAGCGaCGCc -3'
miRNA:   3'- uUGUUCCGGUGCUgAGGC--------UCGC-GUGu -5'
24877 3' -57.1 NC_005284.1 + 9208 0.68 0.453282
Target:  5'- uGAUcAGGCguCGAUagCCGAGUGCGCGg -3'
miRNA:   3'- -UUGuUCCGguGCUGa-GGCUCGCGUGU- -5'
24877 3' -57.1 NC_005284.1 + 23346 0.68 0.443439
Target:  5'- --gGGGGCC-CGGCgcgCCGcagcGGCGCACGu -3'
miRNA:   3'- uugUUCCGGuGCUGa--GGC----UCGCGUGU- -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.