miRNA display CGI


Results 1 - 19 of 19 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
24878 3' -57.6 NC_005284.1 + 30056 0.66 0.559343
Target:  5'- uAGCgggCCgAAGACGCa--CGGGCGUCGUu -3'
miRNA:   3'- -UCGa--GG-UUCUGCGguaGCUCGCGGUA- -5'
24878 3' -57.6 NC_005284.1 + 11767 0.66 0.548548
Target:  5'- cGC-CCGAGuacauCGCCGagaUCGAGCGCa-- -3'
miRNA:   3'- uCGaGGUUCu----GCGGU---AGCUCGCGgua -5'
24878 3' -57.6 NC_005284.1 + 6522 0.66 0.520807
Target:  5'- aGGCUCCucAGugcccgcacggcaacGCGCCGUC-AGCGUCAg -3'
miRNA:   3'- -UCGAGGu-UC---------------UGCGGUAGcUCGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 16712 0.67 0.506097
Target:  5'- --gUCCGAcGCGCCGUgGGuGCGCCAa -3'
miRNA:   3'- ucgAGGUUcUGCGGUAgCU-CGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 30904 0.67 0.485399
Target:  5'- gAGC-CCAgucgGGAUGCaucgggCGGGCGCCGUg -3'
miRNA:   3'- -UCGaGGU----UCUGCGgua---GCUCGCGGUA- -5'
24878 3' -57.6 NC_005284.1 + 47787 0.67 0.485399
Target:  5'- cAGC-CCGGcGAgCGCCAugUCGAgcGCGCCAUg -3'
miRNA:   3'- -UCGaGGUU-CU-GCGGU--AGCU--CGCGGUA- -5'
24878 3' -57.6 NC_005284.1 + 37424 0.67 0.475203
Target:  5'- uAGCcggCCGGGACGUUAUCGcAGCcgGCCGc -3'
miRNA:   3'- -UCGa--GGUUCUGCGGUAGC-UCG--CGGUa -5'
24878 3' -57.6 NC_005284.1 + 16053 0.67 0.475203
Target:  5'- gAGCUC----AUGCCGUCcGGCGCCAUg -3'
miRNA:   3'- -UCGAGguucUGCGGUAGcUCGCGGUA- -5'
24878 3' -57.6 NC_005284.1 + 22864 0.67 0.455138
Target:  5'- aGGCggCGGGAagGgCGUCGAGCGCCGc -3'
miRNA:   3'- -UCGagGUUCUg-CgGUAGCUCGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 45379 0.68 0.43554
Target:  5'- gAGUUUCAcGAUGCCGUCGAGgUGCUc- -3'
miRNA:   3'- -UCGAGGUuCUGCGGUAGCUC-GCGGua -5'
24878 3' -57.6 NC_005284.1 + 17819 0.68 0.43554
Target:  5'- gGGCUCgaCGGGACGCU-UUGuGCGCCGg -3'
miRNA:   3'- -UCGAG--GUUCUGCGGuAGCuCGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 42604 0.68 0.416438
Target:  5'- uGUUCCAGGugGUguUCGGGCucguuaucGCCAg -3'
miRNA:   3'- uCGAGGUUCugCGguAGCUCG--------CGGUa -5'
24878 3' -57.6 NC_005284.1 + 49482 0.69 0.388768
Target:  5'- aAGaUCUGAGcCGCCAUCGAgaagGCGCCGa -3'
miRNA:   3'- -UCgAGGUUCuGCGGUAGCU----CGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 37072 0.69 0.353802
Target:  5'- --gUCCucGAcCGCCAUCGAcGCGCCGg -3'
miRNA:   3'- ucgAGGuuCU-GCGGUAGCU-CGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 6053 0.7 0.337172
Target:  5'- uGuCUCgGGGGCGUCcgCGAGCGUCAc -3'
miRNA:   3'- uC-GAGgUUCUGCGGuaGCUCGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 32973 0.7 0.329072
Target:  5'- aAGCgCCGGGcACGCCGUCGccaccGGCuGCCGUg -3'
miRNA:   3'- -UCGaGGUUC-UGCGGUAGC-----UCG-CGGUA- -5'
24878 3' -57.6 NC_005284.1 + 42372 0.7 0.313307
Target:  5'- cGCUgaCCGAGAuccCGCCGUUGcGCGCCGg -3'
miRNA:   3'- uCGA--GGUUCU---GCGGUAGCuCGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 38611 0.73 0.207578
Target:  5'- cGC-CCA--GCGCCAUCGAcGCGCCGa -3'
miRNA:   3'- uCGaGGUucUGCGGUAGCU-CGCGGUa -5'
24878 3' -57.6 NC_005284.1 + 15987 1.06 0.000781
Target:  5'- aAGCUCCAAGACGCCAUCGAGCGCCAUg -3'
miRNA:   3'- -UCGAGGUUCUGCGGUAGCUCGCGGUA- -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.