miRNA display CGI


Results 1 - 11 of 11 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
28002 3' -54.2 NC_005887.1 + 26966 0.66 0.730631
Target:  5'- uGCAGGccGUUCGGcGACGGUGUGcCggUGa -3'
miRNA:   3'- -CGUCC--UAGGCC-UUGCCGCACaGaaGC- -5'
28002 3' -54.2 NC_005887.1 + 5187 0.66 0.698048
Target:  5'- cGCAGGAgaaCGuGaAGCGGCugaucGUCUUCGg -3'
miRNA:   3'- -CGUCCUag-GC-C-UUGCCGca---CAGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 7575 0.67 0.674868
Target:  5'- gGCAGGcguAUCCGGAcggcaucgcguaaGCGGCGccgGUUgaUCGa -3'
miRNA:   3'- -CGUCC---UAGGCCU-------------UGCCGCa--CAGa-AGC- -5'
28002 3' -54.2 NC_005887.1 + 37290 0.67 0.674868
Target:  5'- uGCGGGcugaucuUCCGGcGCGGCcauugccGUGcCUUCGu -3'
miRNA:   3'- -CGUCCu------AGGCCuUGCCG-------CACaGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 26115 0.67 0.664871
Target:  5'- aGCAGGAugUCCuGcACGGCGcG-CUUCGu -3'
miRNA:   3'- -CGUCCU--AGGcCuUGCCGCaCaGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 38199 0.67 0.642576
Target:  5'- -gAGGAUCUGGAACaGCGUGa----- -3'
miRNA:   3'- cgUCCUAGGCCUUGcCGCACagaagc -5'
28002 3' -54.2 NC_005887.1 + 34435 0.68 0.620242
Target:  5'- uCGGuuUCCGGAGCGGUcgccucgaaGUcGUCUUCGu -3'
miRNA:   3'- cGUCcuAGGCCUUGCCG---------CA-CAGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 41939 0.7 0.489617
Target:  5'- aGCGGG---CGGcGCGGCGcGUCUUCGc -3'
miRNA:   3'- -CGUCCuagGCCuUGCCGCaCAGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 33602 0.73 0.314616
Target:  5'- uGCAGGuUCUGcgcGAgcGCGGCGUgGUCUUCGa -3'
miRNA:   3'- -CGUCCuAGGC---CU--UGCCGCA-CAGAAGC- -5'
28002 3' -54.2 NC_005887.1 + 16483 0.74 0.299191
Target:  5'- gGCAGGAUCCGGcgggcugguCGGCGaUGUCg--- -3'
miRNA:   3'- -CGUCCUAGGCCuu-------GCCGC-ACAGaagc -5'
28002 3' -54.2 NC_005887.1 + 39968 1.11 0.000795
Target:  5'- cGCAGGAUCCGGAACGGCGUGUCUUCGu -3'
miRNA:   3'- -CGUCCUAGGCCUUGCCGCACAGAAGC- -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.