miRNA display CGI


Results 1 - 20 of 22 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
33339 3' -48.4 NC_007605.1 + 86515 0.66 0.999735
Target:  5'- aGGCAgcgUCUUCAGGAcauuCGACGuGGAc -3'
miRNA:   3'- -CUGUa--AGAGGUUCUauu-GCUGC-CCUc -5'
33339 3' -48.4 NC_007605.1 + 85688 0.66 0.999665
Target:  5'- uACAgagC-CCGAGAUGcCGcACGGGGGg -3'
miRNA:   3'- cUGUaa-GaGGUUCUAUuGC-UGCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 129999 0.66 0.999518
Target:  5'- uACGUUCUCCAgaaacugguccugcuGGA-GAUGAaGGGAGg -3'
miRNA:   3'- cUGUAAGAGGU---------------UCUaUUGCUgCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 88824 0.66 0.999473
Target:  5'- aGACGUggugggccugUCUCCGauugcAGAUGugGGaacUGGGAGa -3'
miRNA:   3'- -CUGUA----------AGAGGU-----UCUAUugCU---GCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 95303 0.66 0.999473
Target:  5'- gGGCAUa--CUggGGaGACGGCGGGGGa -3'
miRNA:   3'- -CUGUAagaGGuuCUaUUGCUGCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 67153 0.66 0.999473
Target:  5'- ---cUUCUCCGgcaGGGUGACGGCGGc-- -3'
miRNA:   3'- cuguAAGAGGU---UCUAUUGCUGCCcuc -5'
33339 3' -48.4 NC_007605.1 + 107150 0.66 0.999346
Target:  5'- aGACAaacaUCUCCGgcggcuccAGAUAgaGCGugGGGGu -3'
miRNA:   3'- -CUGUa---AGAGGU--------UCUAU--UGCugCCCUc -5'
33339 3' -48.4 NC_007605.1 + 51272 0.67 0.999011
Target:  5'- cACcUUCUCUAAGAgggggcucUGugGGCuGGGAGg -3'
miRNA:   3'- cUGuAAGAGGUUCU--------AUugCUG-CCCUC- -5'
33339 3' -48.4 NC_007605.1 + 61604 0.67 0.999011
Target:  5'- cGAUAgacUCUCUAGGAgGGCGGCGGuGGc -3'
miRNA:   3'- -CUGUa--AGAGGUUCUaUUGCUGCC-CUc -5'
33339 3' -48.4 NC_007605.1 + 72358 0.67 0.998794
Target:  5'- aGACAUUCUCCAcGGUGGgGggcagggucucGCGGGu- -3'
miRNA:   3'- -CUGUAAGAGGUuCUAUUgC-----------UGCCCuc -5'
33339 3' -48.4 NC_007605.1 + 100479 0.67 0.998238
Target:  5'- gGACAUUCUCUcugugaaaacgGGGAauACGugGcGGAGc -3'
miRNA:   3'- -CUGUAAGAGG-----------UUCUauUGCugC-CCUC- -5'
33339 3' -48.4 NC_007605.1 + 65475 0.68 0.997887
Target:  5'- cGCAUUCaCCAGGc-AGCG-CGGGAGg -3'
miRNA:   3'- cUGUAAGaGGUUCuaUUGCuGCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 149571 0.68 0.997479
Target:  5'- aGGCAcUCgUCCuGGcUggUGACGGGAGa -3'
miRNA:   3'- -CUGUaAG-AGGuUCuAuuGCUGCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 74487 0.69 0.995141
Target:  5'- cACAagggCCuuGAUGACGACGGGGGc -3'
miRNA:   3'- cUGUaagaGGuuCUAUUGCUGCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 107996 0.7 0.988609
Target:  5'- -uCAUUCuUUCGGGggAACGAgGGGAGg -3'
miRNA:   3'- cuGUAAG-AGGUUCuaUUGCUgCCCUC- -5'
33339 3' -48.4 NC_007605.1 + 80930 0.7 0.987052
Target:  5'- cGGCuUUCUCCGGGGUcguGCGuAUGGGAu -3'
miRNA:   3'- -CUGuAAGAGGUUCUAu--UGC-UGCCCUc -5'
33339 3' -48.4 NC_007605.1 + 56719 0.71 0.983452
Target:  5'- aGCAguugCUCCAGGuccAGCGugGGGAc -3'
miRNA:   3'- cUGUaa--GAGGUUCua-UUGCugCCCUc -5'
33339 3' -48.4 NC_007605.1 + 166605 0.72 0.96811
Target:  5'- gGACAUUCUUCugAAGG-AACGGCGGaGAGu -3'
miRNA:   3'- -CUGUAAGAGG--UUCUaUUGCUGCC-CUC- -5'
33339 3' -48.4 NC_007605.1 + 6083 0.72 0.964804
Target:  5'- aGACAUUCUaUAAGAUAACGA-GGaGAGa -3'
miRNA:   3'- -CUGUAAGAgGUUCUAUUGCUgCC-CUC- -5'
33339 3' -48.4 NC_007605.1 + 154509 0.74 0.912091
Target:  5'- -uUAUUCUaCCAuGAUAACGcCGGGAGa -3'
miRNA:   3'- cuGUAAGA-GGUuCUAUUGCuGCCCUC- -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.