miRNA display CGI


Results 1 - 20 of 59 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
16406 3' -56.2 NC_004084.1 + 2303 0.67 0.64647
Target:  5'- cACUgcGGCgcacgacgUCGACGAGGACGAUGa-- -3'
miRNA:   3'- -UGAgaCCG--------AGCUGCUCCUGCUGCagg -5'
16406 3' -56.2 NC_004084.1 + 44928 0.69 0.5161
Target:  5'- aGCUgaGGUgacgaugacguucgUCGACGAGaACGGCGUUCg -3'
miRNA:   3'- -UGAgaCCG--------------AGCUGCUCcUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 27486 0.69 0.519183
Target:  5'- aGCUCgacgUCGACGAGGcgauCGACGUCUu -3'
miRNA:   3'- -UGAGaccgAGCUGCUCCu---GCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 53246 0.69 0.523304
Target:  5'- aGCg--GGCggucgUCGACGGcgacgagaucgggccGGGCGACGUCCu -3'
miRNA:   3'- -UGagaCCG-----AGCUGCU---------------CCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 1846 0.69 0.52951
Target:  5'- -gUgUGGCUCcugcagcGCGAcGGACGACGUCg -3'
miRNA:   3'- ugAgACCGAGc------UGCU-CCUGCUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 58081 0.68 0.603506
Target:  5'- cAC-CUGGCUcaaCGACGAGuuCGGCGgCCu -3'
miRNA:   3'- -UGaGACCGA---GCUGCUCcuGCUGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 39719 0.68 0.614234
Target:  5'- ----cGGCgacgacgccgUCGACGAGGAUGACGaggaggacUCCg -3'
miRNA:   3'- ugagaCCG----------AGCUGCUCCUGCUGC--------AGG- -5'
16406 3' -56.2 NC_004084.1 + 27626 0.67 0.621752
Target:  5'- -aUCUGGUUCGACGcagaagugaucgagGGGAUGcCG-CCg -3'
miRNA:   3'- ugAGACCGAGCUGC--------------UCCUGCuGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 10331 0.67 0.624976
Target:  5'- cCUCUGGUUCGACagcaugucgGAGGAgaaGGuCGUUCg -3'
miRNA:   3'- uGAGACCGAGCUG---------CUCCUg--CU-GCAGG- -5'
16406 3' -56.2 NC_004084.1 + 7413 0.7 0.498777
Target:  5'- ----aGGCgaucgaCGACGAGGGCGAUG-CCg -3'
miRNA:   3'- ugagaCCGa-----GCUGCUCCUGCUGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 12925 0.7 0.459098
Target:  5'- --aCUGGg-CGACGAuGACGACGUCUu -3'
miRNA:   3'- ugaGACCgaGCUGCUcCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 1658 0.7 0.45329
Target:  5'- cGCUCgucaucaugGGCUCGuCGGGcGACcugaucgacgcgaagGACGUCCg -3'
miRNA:   3'- -UGAGa--------CCGAGCuGCUC-CUG---------------CUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 19635 0.82 0.080813
Target:  5'- gUUCcGGCUCGACGAcGAUGGCGUCCa -3'
miRNA:   3'- uGAGaCCGAGCUGCUcCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 30418 0.75 0.252379
Target:  5'- -gUCgacgGGCggcgacggaagcgaUGGCGAGGACGACGUCCc -3'
miRNA:   3'- ugAGa---CCGa-------------GCUGCUCCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 56914 0.74 0.269347
Target:  5'- -aUC-GGCuUCGAgcuCGAGGGCGACGUCUa -3'
miRNA:   3'- ugAGaCCG-AGCU---GCUCCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 937 0.74 0.304539
Target:  5'- cCUCUGGCUCGAcaaguucgacucCGGGGACcGCaUCCu -3'
miRNA:   3'- uGAGACCGAGCU------------GCUCCUGcUGcAGG- -5'
16406 3' -56.2 NC_004084.1 + 47260 0.72 0.359563
Target:  5'- ----cGGCUCGccggcgccuacuACGAGGucgACGACGUCCa -3'
miRNA:   3'- ugagaCCGAGC------------UGCUCC---UGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 1215 0.71 0.402917
Target:  5'- cGCUggCUGGCUCGGCggcgggaucGAGGGCGaucGCGcCCa -3'
miRNA:   3'- -UGA--GACCGAGCUG---------CUCCUGC---UGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 18553 0.71 0.439897
Target:  5'- aACUCgggugGGC-CGACGGGGagaucGCGACGgUCUg -3'
miRNA:   3'- -UGAGa----CCGaGCUGCUCC-----UGCUGC-AGG- -5'
16406 3' -56.2 NC_004084.1 + 35323 0.7 0.449441
Target:  5'- --gCUGGCUaucCGAGGucgcCGACGUCCa -3'
miRNA:   3'- ugaGACCGAgcuGCUCCu---GCUGCAGG- -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.