miRNA display CGI


Results 1 - 16 of 16 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
29349 3' -44.3 NC_006150.1 + 23597 0.66 1
Target:  5'- -----cGUCAGC-CACAGG--AGCCAg -3'
miRNA:   3'- acauuaCAGUUGuGUGUUCaaUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 171012 0.66 1
Target:  5'- aGgcGUGUCGcggauaguaGCACAGGUauauacUGGCCAa -3'
miRNA:   3'- aCauUACAGUug-------UGUGUUCA------AUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 40273 0.66 1
Target:  5'- cUGUGAUuuacaaCAACACACAAGgaGGCa- -3'
miRNA:   3'- -ACAUUAca----GUUGUGUGUUCaaUCGgu -5'
29349 3' -44.3 NC_006150.1 + 127998 0.67 0.999999
Target:  5'- cGUGccGUCGGgGCACGAGaaacaccgUGGCCu -3'
miRNA:   3'- aCAUuaCAGUUgUGUGUUCa-------AUCGGu -5'
29349 3' -44.3 NC_006150.1 + 220634 0.67 0.999999
Target:  5'- aGUAGUGUUAGCaaugaaggcaucgGCcCAAGcggUAGCCAu -3'
miRNA:   3'- aCAUUACAGUUG-------------UGuGUUCa--AUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 184084 0.67 0.999998
Target:  5'- gUGUGGUGUCAgugcggggACugGCGGGggcauGCCu -3'
miRNA:   3'- -ACAUUACAGU--------UGugUGUUCaau--CGGu -5'
29349 3' -44.3 NC_006150.1 + 165499 0.67 0.999998
Target:  5'- gGUAuUGUUAGCAguCAuGUUGGUCAu -3'
miRNA:   3'- aCAUuACAGUUGUguGUuCAAUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 96282 0.68 0.999998
Target:  5'- --cGGUGUCugggguugguGGCACuaaGAGUUGGCCAa -3'
miRNA:   3'- acaUUACAG----------UUGUGug-UUCAAUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 131080 0.69 0.99999
Target:  5'- -----aGUCGACGCAUAGGgugUGGCUc -3'
miRNA:   3'- acauuaCAGUUGUGUGUUCa--AUCGGu -5'
29349 3' -44.3 NC_006150.1 + 32711 0.69 0.99999
Target:  5'- -----cGUCGcuCGCACGAGggAGCCGg -3'
miRNA:   3'- acauuaCAGUu-GUGUGUUCaaUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 179887 0.7 0.99995
Target:  5'- aGUAAUGUUcACGCGCGGGccauacAGCCu -3'
miRNA:   3'- aCAUUACAGuUGUGUGUUCaa----UCGGu -5'
29349 3' -44.3 NC_006150.1 + 117273 0.71 0.999747
Target:  5'- gGUAggGaaGACACGCGGGUgacgAGCCGc -3'
miRNA:   3'- aCAUuaCagUUGUGUGUUCAa---UCGGU- -5'
29349 3' -44.3 NC_006150.1 + 141027 0.72 0.999202
Target:  5'- aGUAAUGUCAuuaucAUugACGAGUgcGGCCu -3'
miRNA:   3'- aCAUUACAGU-----UGugUGUUCAa-UCGGu -5'
29349 3' -44.3 NC_006150.1 + 199521 0.78 0.96487
Target:  5'- cUGUGGuUGUUAACGCACAAGUucugguuuugcggaUAGCCu -3'
miRNA:   3'- -ACAUU-ACAGUUGUGUGUUCA--------------AUCGGu -5'
29349 3' -44.3 NC_006150.1 + 123133 0.82 0.852631
Target:  5'- gUGUAuAUGUCAuCACACAGGUaugUGGCCAu -3'
miRNA:   3'- -ACAU-UACAGUuGUGUGUUCA---AUCGGU- -5'
29349 3' -44.3 NC_006150.1 + 196701 1.11 0.0397
Target:  5'- gUGUAAUGUCAACACACAAGUUAGCCAg -3'
miRNA:   3'- -ACAUUACAGUUGUGUGUUCAAUCGGU- -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.