miRNA display CGI


Results 1 - 20 of 29 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
28162 5' -57.3 NC_005887.1 + 534 0.66 0.504059
Target:  5'- cGCGUCGGccGCcGcGCGCCGCGccggauaCAGCg -3'
miRNA:   3'- uUGUAGCC--CGaCaCGCGGCGUa------GUCG- -5'
28162 5' -57.3 NC_005887.1 + 3010 0.66 0.493482
Target:  5'- gAugGUCGcGGCg--GUGCCGCGgcgcuugcgCAGCu -3'
miRNA:   3'- -UugUAGC-CCGacaCGCGGCGUa--------GUCG- -5'
28162 5' -57.3 NC_005887.1 + 13617 0.66 0.493482
Target:  5'- uGGCAgcgCGGcGCgcgGCgGCCGCAcUCAGCc -3'
miRNA:   3'- -UUGUa--GCC-CGacaCG-CGGCGU-AGUCG- -5'
28162 5' -57.3 NC_005887.1 + 4329 0.66 0.490328
Target:  5'- -uCAUCGGGCcgagcaguucagacUgcGUGCgGCCgaGCGUCGGCg -3'
miRNA:   3'- uuGUAGCCCG--------------A--CACG-CGG--CGUAGUCG- -5'
28162 5' -57.3 NC_005887.1 + 28385 0.66 0.481965
Target:  5'- cGGCuUCGcGGCUGUcgaucacGCGCaCGUcgCAGCc -3'
miRNA:   3'- -UUGuAGC-CCGACA-------CGCG-GCGuaGUCG- -5'
28162 5' -57.3 NC_005887.1 + 13502 0.66 0.472641
Target:  5'- gAACGUgcUGaGCgGUGCGCCGCucgucgCAGCa -3'
miRNA:   3'- -UUGUA--GCcCGaCACGCGGCGua----GUCG- -5'
28162 5' -57.3 NC_005887.1 + 14105 0.66 0.462388
Target:  5'- cGGCAUCGucucaGGCUGcgccgGCGgCGCGcCGGCg -3'
miRNA:   3'- -UUGUAGC-----CCGACa----CGCgGCGUaGUCG- -5'
28162 5' -57.3 NC_005887.1 + 37374 0.67 0.456292
Target:  5'- cAGCGUCGGcuuccuucuccuucaGCUG-GCGCUGCG-CGGUc -3'
miRNA:   3'- -UUGUAGCC---------------CGACaCGCGGCGUaGUCG- -5'
28162 5' -57.3 NC_005887.1 + 35475 0.67 0.452253
Target:  5'- cGACucgUGGGCgaaggccGUGCGCgggCGCAUCgAGCa -3'
miRNA:   3'- -UUGua-GCCCGa------CACGCG---GCGUAG-UCG- -5'
28162 5' -57.3 NC_005887.1 + 40514 0.67 0.452253
Target:  5'- cGGCAuUCGGGaucaUGUcgaGCGCCGauuugAUCAGCu -3'
miRNA:   3'- -UUGU-AGCCCg---ACA---CGCGGCg----UAGUCG- -5'
28162 5' -57.3 NC_005887.1 + 481 0.67 0.442241
Target:  5'- cAACAgCGGGCgGcGCGgCGCGUCuucGCg -3'
miRNA:   3'- -UUGUaGCCCGaCaCGCgGCGUAGu--CG- -5'
28162 5' -57.3 NC_005887.1 + 34917 0.67 0.441246
Target:  5'- gAACGUCGcGCUGUGCggaacuuGCCGuCGcCGGCu -3'
miRNA:   3'- -UUGUAGCcCGACACG-------CGGC-GUaGUCG- -5'
28162 5' -57.3 NC_005887.1 + 17966 0.67 0.432355
Target:  5'- uGCG-CGGGCU---CGCCGgCAUCGGCc -3'
miRNA:   3'- uUGUaGCCCGAcacGCGGC-GUAGUCG- -5'
28162 5' -57.3 NC_005887.1 + 17790 0.67 0.422599
Target:  5'- --gGUCGuGGCUGU-CGUCGCAggGGCu -3'
miRNA:   3'- uugUAGC-CCGACAcGCGGCGUagUCG- -5'
28162 5' -57.3 NC_005887.1 + 1232 0.67 0.412977
Target:  5'- ----gCGGGCgcUGCGCgGCGcUCAGCa -3'
miRNA:   3'- uuguaGCCCGacACGCGgCGU-AGUCG- -5'
28162 5' -57.3 NC_005887.1 + 316 0.68 0.394144
Target:  5'- cGGCAUCaGGUcgagGCGCCGCAggucaaaCAGCa -3'
miRNA:   3'- -UUGUAGcCCGaca-CGCGGCGUa------GUCG- -5'
28162 5' -57.3 NC_005887.1 + 38645 0.68 0.384939
Target:  5'- cAACAUCGGGCcGUcguucuCGUCG-AUCAGCa -3'
miRNA:   3'- -UUGUAGCCCGaCAc-----GCGGCgUAGUCG- -5'
28162 5' -57.3 NC_005887.1 + 28264 0.68 0.36696
Target:  5'- aGACGcgCGGcGCUGaUGCGgCGCA-CAGCc -3'
miRNA:   3'- -UUGUa-GCC-CGAC-ACGCgGCGUaGUCG- -5'
28162 5' -57.3 NC_005887.1 + 18482 0.68 0.36696
Target:  5'- cAGCGUCGuGCUGacgacgGCGCCGCGgcguaGGCc -3'
miRNA:   3'- -UUGUAGCcCGACa-----CGCGGCGUag---UCG- -5'
28162 5' -57.3 NC_005887.1 + 32299 0.69 0.324595
Target:  5'- -uCGUCGGGCcagccgGcGCGCCGCAgu-GCg -3'
miRNA:   3'- uuGUAGCCCGa-----CaCGCGGCGUaguCG- -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.