miRNA display CGI


Results 1 - 17 of 17 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
22155 3' -54.9 NC_004927.1 + 654 0.66 0.837626
Target:  5'- -aCCGGGGCGGGc-CGCU-UUCACCg -3'
miRNA:   3'- agGGCUCUGCCUuuGCGGcAAGUGGg -5'
22155 3' -54.9 NC_004927.1 + 890 0.66 0.862254
Target:  5'- aCCgGAGAgaacuaccCGGAGACGUac-UUACCCg -3'
miRNA:   3'- aGGgCUCU--------GCCUUUGCGgcaAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 10391 0.71 0.565529
Target:  5'- cUCCCGAcgacgccccacgGugGGGcguuuCGCCGUUUACUCu -3'
miRNA:   3'- -AGGGCU------------CugCCUuu---GCGGCAAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 11908 0.71 0.548864
Target:  5'- cUCCCuccaucaucgacgggGAGAUGaGAAuguccuucuCGCUGUUCACCCa -3'
miRNA:   3'- -AGGG---------------CUCUGC-CUUu--------GCGGCAAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 21776 0.68 0.763758
Target:  5'- gCCCGAGGaaucguCGGAGucacCGUCGUcgUCGCCg -3'
miRNA:   3'- aGGGCUCU------GCCUUu---GCGGCA--AGUGGg -5'
22155 3' -54.9 NC_004927.1 + 26193 0.78 0.249042
Target:  5'- aCCCGAGcgaaucACGGGAACGUUcaUCACCCg -3'
miRNA:   3'- aGGGCUC------UGCCUUUGCGGcaAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 30673 0.68 0.73371
Target:  5'- -aCCGAGA-GGGAACGCgGUcgggcuugaCGCCCu -3'
miRNA:   3'- agGGCUCUgCCUUUGCGgCAa--------GUGGG- -5'
22155 3' -54.9 NC_004927.1 + 31061 0.69 0.713186
Target:  5'- gUCCCGAGAgGGAGGacggGCCuucCGCUCg -3'
miRNA:   3'- -AGGGCUCUgCCUUUg---CGGcaaGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 33417 0.67 0.783178
Target:  5'- -aUCGAGuCGGAaguaAACGUCGUUgGCCg -3'
miRNA:   3'- agGGCUCuGCCU----UUGCGGCAAgUGGg -5'
22155 3' -54.9 NC_004927.1 + 38094 0.68 0.753854
Target:  5'- gUCCCGAGagaGCGGAuugcguaguccACGUCGaUUCcgACCCg -3'
miRNA:   3'- -AGGGCUC---UGCCUu----------UGCGGC-AAG--UGGG- -5'
22155 3' -54.9 NC_004927.1 + 38719 0.66 0.837626
Target:  5'- -aCCGAGuCGGcccGCGCCGUggggaGCCg -3'
miRNA:   3'- agGGCUCuGCCuu-UGCGGCAag---UGGg -5'
22155 3' -54.9 NC_004927.1 + 42731 0.7 0.618293
Target:  5'- aCCCGcaGGACGGGucaauuaGCCGcUCACCa -3'
miRNA:   3'- aGGGC--UCUGCCUuug----CGGCaAGUGGg -5'
22155 3' -54.9 NC_004927.1 + 51782 0.69 0.66075
Target:  5'- cUCCCcaucuGACucgGGAAGCGCCGaUUAUCCa -3'
miRNA:   3'- -AGGGcu---CUG---CCUUUGCGGCaAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 54433 0.67 0.802014
Target:  5'- gUCCCGAGucgcGCGGAGGCa-CGaUUACCUg -3'
miRNA:   3'- -AGGGCUC----UGCCUUUGcgGCaAGUGGG- -5'
22155 3' -54.9 NC_004927.1 + 60134 0.66 0.829003
Target:  5'- cCCCGAGACGGAcucCGagaGUUCguaaACUCg -3'
miRNA:   3'- aGGGCUCUGCCUuu-GCgg-CAAG----UGGG- -5'
22155 3' -54.9 NC_004927.1 + 63001 0.66 0.846047
Target:  5'- uUCCUGAuuGACGGAAcggauuACGUCaagcCGCCCg -3'
miRNA:   3'- -AGGGCU--CUGCCUU------UGCGGcaa-GUGGG- -5'
22155 3' -54.9 NC_004927.1 + 70879 0.79 0.200226
Target:  5'- uUCCCGgcacgggaaucgagcAGACGGAGgaagauauuGCGCCGgUCGCCCu -3'
miRNA:   3'- -AGGGC---------------UCUGCCUU---------UGCGGCaAGUGGG- -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.