miRNA display CGI


Results 1 - 20 of 56 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
28004 5' -57.7 NC_005887.1 + 1703 0.67 0.44907
Target:  5'- cCGGUgAUCGGCGCGCgcucguCAGuGCCUGucuuGCc -3'
miRNA:   3'- -GCUAgUAGUCGCGCG------GUC-CGGGCu---UG- -5'
28004 5' -57.7 NC_005887.1 + 1955 0.66 0.510443
Target:  5'- ---aCGUCGGcCGUGCCGGGCaucaCGAu- -3'
miRNA:   3'- gcuaGUAGUC-GCGCGGUCCGg---GCUug -5'
28004 5' -57.7 NC_005887.1 + 2424 0.69 0.323627
Target:  5'- -cGUCGUCGaCGCGCCcGGCUCGAucuGCg -3'
miRNA:   3'- gcUAGUAGUcGCGCGGuCCGGGCU---UG- -5'
28004 5' -57.7 NC_005887.1 + 2487 0.66 0.469093
Target:  5'- gGAUCAUCgacGGCGaGCCcGGCCUGcuCg -3'
miRNA:   3'- gCUAGUAG---UCGCgCGGuCCGGGCuuG- -5'
28004 5' -57.7 NC_005887.1 + 3786 0.67 0.44907
Target:  5'- aGAUCAUCGGUGUugucaccgGCCAGuggcGCCCGc-- -3'
miRNA:   3'- gCUAGUAGUCGCG--------CGGUC----CGGGCuug -5'
28004 5' -57.7 NC_005887.1 + 4009 0.67 0.44907
Target:  5'- uCGAccugCGUucCGGCGCGCUGaauugggguGGCCUGAACg -3'
miRNA:   3'- -GCUa---GUA--GUCGCGCGGU---------CCGGGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 9279 0.67 0.439237
Target:  5'- gCGGUCGgcaCGGCGaCGCCgcagguuacGGGCaCCGAAa -3'
miRNA:   3'- -GCUAGUa--GUCGC-GCGG---------UCCG-GGCUUg -5'
28004 5' -57.7 NC_005887.1 + 10038 0.72 0.214526
Target:  5'- uGGUCcuacgcacugCGGCGCGCCGgcuGGCCCGAc- -3'
miRNA:   3'- gCUAGua--------GUCGCGCGGU---CCGGGCUug -5'
28004 5' -57.7 NC_005887.1 + 10257 0.72 0.226217
Target:  5'- uGAUCGUCcGC-CGCCAGGUCaaCGGGCa -3'
miRNA:   3'- gCUAGUAGuCGcGCGGUCCGG--GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 11377 0.68 0.365282
Target:  5'- gCGggCGUCAGCGCaGCCGGaGCgCUGGc- -3'
miRNA:   3'- -GCuaGUAGUCGCG-CGGUC-CG-GGCUug -5'
28004 5' -57.7 NC_005887.1 + 12419 0.7 0.278451
Target:  5'- uCGAUCccgagAUC-GUGCGCgAGGCCCGcGGCa -3'
miRNA:   3'- -GCUAG-----UAGuCGCGCGgUCCGGGC-UUG- -5'
28004 5' -57.7 NC_005887.1 + 12589 0.68 0.401176
Target:  5'- gCGAUCcucgcgAUCAGCuCGCCGGGCaagaCCGuGCa -3'
miRNA:   3'- -GCUAG------UAGUCGcGCGGUCCG----GGCuUG- -5'
28004 5' -57.7 NC_005887.1 + 13124 0.69 0.323627
Target:  5'- aGGUCGacaccUCgAGCGUGCCGGGCCuCGucuCg -3'
miRNA:   3'- gCUAGU-----AG-UCGCGCGGUCCGG-GCuu-G- -5'
28004 5' -57.7 NC_005887.1 + 13537 0.68 0.374045
Target:  5'- aCGAUCGcgaaugcgaUCGGCgauGCGCUgccGCCCGAGCa -3'
miRNA:   3'- -GCUAGU---------AGUCG---CGCGGuc-CGGGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 14348 0.74 0.16361
Target:  5'- gCGAUCGUgaagCAGCGUGCCGGGCaCCu--- -3'
miRNA:   3'- -GCUAGUA----GUCGCGCGGUCCG-GGcuug -5'
28004 5' -57.7 NC_005887.1 + 14690 0.66 0.479275
Target:  5'- aCGAUCGggcUCGuCGCGgCGGGCgggCCGGGCg -3'
miRNA:   3'- -GCUAGU---AGUcGCGCgGUCCG---GGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 14993 0.66 0.521021
Target:  5'- cCGcgCAggccgcaGGCGUGCC--GCCCGAGCu -3'
miRNA:   3'- -GCuaGUag-----UCGCGCGGucCGGGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 14996 0.67 0.458023
Target:  5'- cCGAcgcUCGUCuGCGCGCCGcugcgcguGGCgcagucgacguggCCGGACg -3'
miRNA:   3'- -GCU---AGUAGuCGCGCGGU--------CCG-------------GGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 15089 0.7 0.292928
Target:  5'- cCGAUCAUUGGCGaCG-CGGGCCgGcGCg -3'
miRNA:   3'- -GCUAGUAGUCGC-GCgGUCCGGgCuUG- -5'
28004 5' -57.7 NC_005887.1 + 16013 0.68 0.401176
Target:  5'- uCGcgCAcccggcCAGCGCcgGCCAcGGCCUGAACc -3'
miRNA:   3'- -GCuaGUa-----GUCGCG--CGGU-CCGGGCUUG- -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.