miRNA display CGI


Results 1 - 20 of 42 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
17159 3' -50.1 NC_004333.2 + 227 0.71 0.757139
Target:  5'- gGCGcCGAuCGUGUGcUCGcgCCGAAUCa -3'
miRNA:   3'- -CGCaGCUuGCGCAU-AGCa-GGCUUAGc -5'
17159 3' -50.1 NC_004333.2 + 232 0.67 0.926382
Target:  5'- uGCGUCGGgucgccccACGcCGUGcCGUUCGAugugGUCGu -3'
miRNA:   3'- -CGCAGCU--------UGC-GCAUaGCAGGCU----UAGC- -5'
17159 3' -50.1 NC_004333.2 + 2550 0.74 0.602427
Target:  5'- aGCGUCGAucgucucgaacaACGCGgcuUCGUUCGGcgCGc -3'
miRNA:   3'- -CGCAGCU------------UGCGCau-AGCAGGCUuaGC- -5'
17159 3' -50.1 NC_004333.2 + 3696 0.69 0.826761
Target:  5'- cGCGUCGuAGCuGCGgAUCGUCUG-GUUGa -3'
miRNA:   3'- -CGCAGC-UUG-CGCaUAGCAGGCuUAGC- -5'
17159 3' -50.1 NC_004333.2 + 3769 0.69 0.844894
Target:  5'- aGCGUCG-ACGUGg--CGUUCuGAUCGg -3'
miRNA:   3'- -CGCAGCuUGCGCauaGCAGGcUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 8916 0.68 0.900589
Target:  5'- gGCGUCGAugcgcgACGCGgcuUCGUUCGcgcCGg -3'
miRNA:   3'- -CGCAGCU------UGCGCau-AGCAGGCuuaGC- -5'
17159 3' -50.1 NC_004333.2 + 9781 0.68 0.893432
Target:  5'- gGCGUuucgCGAAcCGCGUG-CG-CCGAAUCc -3'
miRNA:   3'- -CGCA----GCUU-GCGCAUaGCaGGCUUAGc -5'
17159 3' -50.1 NC_004333.2 + 10087 0.66 0.952159
Target:  5'- -gGUCGGAuCGCGguacagGUCGUagacgcgauUCGGAUCGa -3'
miRNA:   3'- cgCAGCUU-GCGCa-----UAGCA---------GGCUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 10769 0.67 0.926382
Target:  5'- cGCGUCGAACaGCG--UCGaaCCGAGUg- -3'
miRNA:   3'- -CGCAGCUUG-CGCauAGCa-GGCUUAgc -5'
17159 3' -50.1 NC_004333.2 + 12888 0.66 0.953915
Target:  5'- uGCGUCGAGCccggauagcgGCGUGUUGaacuggaagaauucuUCCGucgccuuGUCGa -3'
miRNA:   3'- -CGCAGCUUG----------CGCAUAGC---------------AGGCu------UAGC- -5'
17159 3' -50.1 NC_004333.2 + 13469 0.66 0.952159
Target:  5'- cGCGUcgCGAAUGCGcaggCGUUCGAucUCGu -3'
miRNA:   3'- -CGCA--GCUUGCGCaua-GCAGGCUu-AGC- -5'
17159 3' -50.1 NC_004333.2 + 13747 0.67 0.926382
Target:  5'- -aGUCGAGCGCGUAggaCG-CCGcg-CGc -3'
miRNA:   3'- cgCAGCUUGCGCAUa--GCaGGCuuaGC- -5'
17159 3' -50.1 NC_004333.2 + 13856 0.66 0.956468
Target:  5'- cGCGUCGAGCGCauugagCGcgCCGcgccgcgcgaAGUCGg -3'
miRNA:   3'- -CGCAGCUUGCGcaua--GCa-GGC----------UUAGC- -5'
17159 3' -50.1 NC_004333.2 + 15874 0.66 0.942704
Target:  5'- gGCGUCG-GCGCG-AUCGaacgcUUCGAgAUCGa -3'
miRNA:   3'- -CGCAGCuUGCGCaUAGC-----AGGCU-UAGC- -5'
17159 3' -50.1 NC_004333.2 + 18083 0.66 0.952159
Target:  5'- gGCGauucucugCGAGCGCGccaCGUCCGcauUCGg -3'
miRNA:   3'- -CGCa-------GCUUGCGCauaGCAGGCuu-AGC- -5'
17159 3' -50.1 NC_004333.2 + 18103 0.66 0.947572
Target:  5'- aGCG-CGAucaGCGCGUAgaacUCGgCCGGcuucGUCGg -3'
miRNA:   3'- -CGCaGCU---UGCGCAU----AGCaGGCU----UAGC- -5'
17159 3' -50.1 NC_004333.2 + 20996 0.69 0.826761
Target:  5'- uGCGuuUCGAGCGCGUGgcagcCGUCaCGGG-CGa -3'
miRNA:   3'- -CGC--AGCUUGCGCAUa----GCAG-GCUUaGC- -5'
17159 3' -50.1 NC_004333.2 + 21033 0.69 0.862095
Target:  5'- cGCGcCGcGCGCGUuugCGUCCGGc--- -3'
miRNA:   3'- -CGCaGCuUGCGCAua-GCAGGCUuagc -5'
17159 3' -50.1 NC_004333.2 + 21533 1.11 0.00276
Target:  5'- cGCGUCGAACGCGUAUCGUCCGAAUCGc -3'
miRNA:   3'- -CGCAGCUUGCGCAUAGCAGGCUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 22090 0.66 0.956468
Target:  5'- uGCGUCGAgaaaacgcccGCGCGcugauUCGcgCCGAcgCa -3'
miRNA:   3'- -CGCAGCU----------UGCGCau---AGCa-GGCUuaGc -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.