miRNA display CGI


Results 1 - 20 of 33 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
22909 3' -55.7 NC_005137.2 + 109591 0.73 0.500187
Target:  5'- cUUGGUUugGCggguGGCGCUGUCGuaaaaCCCGUCa -3'
miRNA:   3'- -AACUAAugUG----CCGCGGCAGC-----GGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 109458 0.66 0.8855
Target:  5'- -----aACGCGGCGUuuCGUCGaCCCAc- -3'
miRNA:   3'- aacuaaUGUGCCGCG--GCAGC-GGGUag -5'
22909 3' -55.7 NC_005137.2 + 118481 0.66 0.847333
Target:  5'- aUGAUggcgugcuCAUGuGCGCCGUagaccgacCGUCCAUCg -3'
miRNA:   3'- aACUAau------GUGC-CGCGGCA--------GCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 5376 0.67 0.839058
Target:  5'- -cGGUUACGCGuuaaCGCaCGUCGCCaauGUCu -3'
miRNA:   3'- aaCUAAUGUGCc---GCG-GCAGCGGg--UAG- -5'
22909 3' -55.7 NC_005137.2 + 77198 0.67 0.8228
Target:  5'- cUUGAUUACuauuuugggugauuuCGGCaacUCGUCGCCCGUUu -3'
miRNA:   3'- -AACUAAUGu--------------GCCGc--GGCAGCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 31179 0.67 0.821926
Target:  5'- gUUGuaaUAUACGGCGCaaccggcccgCGUCGCCCu-- -3'
miRNA:   3'- -AACua-AUGUGCCGCG----------GCAGCGGGuag -5'
22909 3' -55.7 NC_005137.2 + 1509 0.67 0.810397
Target:  5'- -----cGCGCGGCGCCGacgcguuguucaauUCGgCCAUUa -3'
miRNA:   3'- aacuaaUGUGCCGCGGC--------------AGCgGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 63284 0.67 0.80407
Target:  5'- -----aACACGGUcucGCCGUCGCUCGc- -3'
miRNA:   3'- aacuaaUGUGCCG---CGGCAGCGGGUag -5'
22909 3' -55.7 NC_005137.2 + 12375 0.68 0.794893
Target:  5'- -----aGCACGGUGCgGUUGUCCAg- -3'
miRNA:   3'- aacuaaUGUGCCGCGgCAGCGGGUag -5'
22909 3' -55.7 NC_005137.2 + 97988 0.68 0.785561
Target:  5'- -cGGgcGCGCGGCGUgGgugCGCCCGc- -3'
miRNA:   3'- aaCUaaUGUGCCGCGgCa--GCGGGUag -5'
22909 3' -55.7 NC_005137.2 + 43811 0.72 0.5201
Target:  5'- -cGAcgGCACGaGCaGCCGcccgCGCCCGUCg -3'
miRNA:   3'- aaCUaaUGUGC-CG-CGGCa---GCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 35937 0.72 0.560792
Target:  5'- ----gUACACGGCuucuGCCGUUGCCUGUUa -3'
miRNA:   3'- aacuaAUGUGCCG----CGGCAGCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 25508 0.71 0.581474
Target:  5'- -----gACAUGGCGCCGUcaCGCUCGUUg -3'
miRNA:   3'- aacuaaUGUGCCGCGGCA--GCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 18255 0.7 0.654658
Target:  5'- ----gUACuGCGGCGCCG-CGUCCGUUa -3'
miRNA:   3'- aacuaAUG-UGCCGCGGCaGCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 49624 0.7 0.675526
Target:  5'- -gGA--AUGCGGuCGCCGUUGCCCGg- -3'
miRNA:   3'- aaCUaaUGUGCC-GCGGCAGCGGGUag -5'
22909 3' -55.7 NC_005137.2 + 112393 0.69 0.706525
Target:  5'- aUUGAUUGCGCGaucGCGCaCGgCGCgCCAUUg -3'
miRNA:   3'- -AACUAAUGUGC---CGCG-GCaGCG-GGUAG- -5'
22909 3' -55.7 NC_005137.2 + 55424 0.69 0.716739
Target:  5'- -----cGCACGGCGCCGcccgCGUCCGc- -3'
miRNA:   3'- aacuaaUGUGCCGCGGCa---GCGGGUag -5'
22909 3' -55.7 NC_005137.2 + 18537 1.06 0.003462
Target:  5'- uUUGAUUACACGGCGCCGUCGCCCAUCc -3'
miRNA:   3'- -AACUAAUGUGCCGCGGCAGCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 119951 0.66 0.8855
Target:  5'- -gGAUUugACGGUaacGCuCGU-GCCCAUUa -3'
miRNA:   3'- aaCUAAugUGCCG---CG-GCAgCGGGUAG- -5'
22909 3' -55.7 NC_005137.2 + 15746 0.66 0.877584
Target:  5'- -aGGU--CGCGGCGCCagcGUCGCCauguguuCGUCg -3'
miRNA:   3'- aaCUAauGUGCCGCGG---CAGCGG-------GUAG- -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.