miRNA display CGI


Results 1 - 20 of 30 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
7225 3' -51.4 NC_001900.1 + 21602 0.66 0.898795
Target:  5'- aGGCCGugCGgcUCGgccccaGGCUGAUCcgCGu -3'
miRNA:   3'- -CUGGCugGUaaAGC------UCGGCUAGuaGC- -5'
7225 3' -51.4 NC_001900.1 + 17997 0.66 0.898795
Target:  5'- aGAUCGuCCAggcgUUCaccaagcuGAuGCCGGUCAUCGu -3'
miRNA:   3'- -CUGGCuGGUa---AAG--------CU-CGGCUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 574 0.66 0.891518
Target:  5'- cGCCG-CCGUUUCGGGCgGcgCAc-- -3'
miRNA:   3'- cUGGCuGGUAAAGCUCGgCuaGUagc -5'
7225 3' -51.4 NC_001900.1 + 43709 0.66 0.883962
Target:  5'- uGGCCGAUCugggCGAGCCa--CAUCGc -3'
miRNA:   3'- -CUGGCUGGuaaaGCUCGGcuaGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 31613 0.66 0.883962
Target:  5'- -uUCGGCCggUUCGGGCCGAcCGg-- -3'
miRNA:   3'- cuGGCUGGuaAAGCUCGGCUaGUagc -5'
7225 3' -51.4 NC_001900.1 + 18351 0.66 0.876132
Target:  5'- -cCCGGCC-UUUCGGGgCCGGUgGguUCGg -3'
miRNA:   3'- cuGGCUGGuAAAGCUC-GGCUAgU--AGC- -5'
7225 3' -51.4 NC_001900.1 + 30724 0.66 0.868036
Target:  5'- uGCUGGCCAguuccuuggccUUgcucaccgcaGAGCUGAUCAUCGa -3'
miRNA:   3'- cUGGCUGGU-----------AAag--------CUCGGCUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 45001 0.67 0.851073
Target:  5'- gGACuCGACCuugaUCGAGgCGGUCAcgccgUCGa -3'
miRNA:   3'- -CUG-GCUGGuaa-AGCUCgGCUAGU-----AGC- -5'
7225 3' -51.4 NC_001900.1 + 2307 0.67 0.851073
Target:  5'- cGCCaGCCAgaUCGaAGCacaGAUCAUCGc -3'
miRNA:   3'- cUGGcUGGUaaAGC-UCGg--CUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 42556 0.67 0.842222
Target:  5'- uGGCUGGCCAg--CGGGCCGAg----- -3'
miRNA:   3'- -CUGGCUGGUaaaGCUCGGCUaguagc -5'
7225 3' -51.4 NC_001900.1 + 39448 0.67 0.82383
Target:  5'- cGGCCGACCGaucCGAGgaUCGAUC-UCGg -3'
miRNA:   3'- -CUGGCUGGUaaaGCUC--GGCUAGuAGC- -5'
7225 3' -51.4 NC_001900.1 + 37447 0.68 0.804585
Target:  5'- -cCCGACCAcagccUUGAGCugcuugCGGUCAUCGa -3'
miRNA:   3'- cuGGCUGGUaa---AGCUCG------GCUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 3072 0.68 0.804585
Target:  5'- cGAcCCGACCGg--CGGGaaGGUCGUUGa -3'
miRNA:   3'- -CU-GGCUGGUaaaGCUCggCUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 38009 0.68 0.793669
Target:  5'- cAUCGACCuugUCGgguugauAGCCGAUgAUCGg -3'
miRNA:   3'- cUGGCUGGuaaAGC-------UCGGCUAgUAGC- -5'
7225 3' -51.4 NC_001900.1 + 32259 0.68 0.784576
Target:  5'- --aCGACCAUcggCGAGuuGGUCAuguUCGg -3'
miRNA:   3'- cugGCUGGUAaa-GCUCggCUAGU---AGC- -5'
7225 3' -51.4 NC_001900.1 + 27469 0.69 0.763895
Target:  5'- gGGCCGAgCCGcacggccUUGAGCCGGcCGUCGg -3'
miRNA:   3'- -CUGGCU-GGUaa-----AGCUCGGCUaGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 23159 0.69 0.763895
Target:  5'- gGACCaGACCGUcgUUGAGCCGGccgagCAgaUCGg -3'
miRNA:   3'- -CUGG-CUGGUAa-AGCUCGGCUa----GU--AGC- -5'
7225 3' -51.4 NC_001900.1 + 40444 0.69 0.753334
Target:  5'- aGCCGACCA----GAGCCGuccaGUCGUUGg -3'
miRNA:   3'- cUGGCUGGUaaagCUCGGC----UAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 30287 0.69 0.753334
Target:  5'- aGCCG-CCuucaCGAGCgGGUCAUCGc -3'
miRNA:   3'- cUGGCuGGuaaaGCUCGgCUAGUAGC- -5'
7225 3' -51.4 NC_001900.1 + 37147 0.69 0.742642
Target:  5'- aACCGGCUucuugUCGAaaccGCCGAUCAguUCGa -3'
miRNA:   3'- cUGGCUGGuaa--AGCU----CGGCUAGU--AGC- -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.