miRNA display CGI


Results 1 - 18 of 18 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
18282 5' -54.9 NC_004681.1 + 31465 0.66 0.821861
Target:  5'- cACCGUucguguauUGGUGAGCGaucuuccCCgGGUAGGACg -3'
miRNA:   3'- -UGGCA--------GCUACUUGCac-----GG-CCAUCCUG- -5'
18282 5' -54.9 NC_004681.1 + 46741 0.66 0.812786
Target:  5'- cGCUGUC-AUGAACGU---GGUGGGACc -3'
miRNA:   3'- -UGGCAGcUACUUGCAcggCCAUCCUG- -5'
18282 5' -54.9 NC_004681.1 + 59743 0.66 0.811868
Target:  5'- cACCGcuUCGGacgcccgcuugUGGACGUGCCGGaugucgagcgcccUGGuGACg -3'
miRNA:   3'- -UGGC--AGCU-----------ACUUGCACGGCC-------------AUC-CUG- -5'
18282 5' -54.9 NC_004681.1 + 54695 0.66 0.80353
Target:  5'- uGCCGUCGAUGuccACGaUGauugCGG-GGGGCa -3'
miRNA:   3'- -UGGCAGCUACu--UGC-ACg---GCCaUCCUG- -5'
18282 5' -54.9 NC_004681.1 + 54408 0.67 0.794104
Target:  5'- -gCGUCGAUGAcgacggAUGUGCCgcucuugaGGUGGG-Cg -3'
miRNA:   3'- ugGCAGCUACU------UGCACGG--------CCAUCCuG- -5'
18282 5' -54.9 NC_004681.1 + 30689 0.67 0.793152
Target:  5'- cGCCGUCaGGcagcGAACcgccuuggcgcuuGcGCCGGUAGGACu -3'
miRNA:   3'- -UGGCAG-CUa---CUUG-------------CaCGGCCAUCCUG- -5'
18282 5' -54.9 NC_004681.1 + 6814 0.67 0.784516
Target:  5'- cCCGUCGAUGGAcCGUGaCGGc--GACa -3'
miRNA:   3'- uGGCAGCUACUU-GCACgGCCaucCUG- -5'
18282 5' -54.9 NC_004681.1 + 49626 0.67 0.754887
Target:  5'- gUCGUcCGGUGAACGagaaggagUGCCGGgagcGGGCc -3'
miRNA:   3'- uGGCA-GCUACUUGC--------ACGGCCau--CCUG- -5'
18282 5' -54.9 NC_004681.1 + 857 0.68 0.692693
Target:  5'- cCCGUC-AUGGGCGgcaggGCCGgGUAGGcCg -3'
miRNA:   3'- uGGCAGcUACUUGCa----CGGC-CAUCCuG- -5'
18282 5' -54.9 NC_004681.1 + 29431 0.69 0.649972
Target:  5'- cGCUGUCGAggucGAAgGUGCCGuugAGGAg -3'
miRNA:   3'- -UGGCAGCUa---CUUgCACGGCca-UCCUg -5'
18282 5' -54.9 NC_004681.1 + 1076 0.7 0.618805
Target:  5'- cGCgUGUCGAUGAAUGcccggggcucguagcGCCGGUAGGuCa -3'
miRNA:   3'- -UG-GCAGCUACUUGCa--------------CGGCCAUCCuG- -5'
18282 5' -54.9 NC_004681.1 + 17787 0.7 0.585596
Target:  5'- aACCGUCGAggcguagucggGAGC-UGCCGGUgagagcGGGAUc -3'
miRNA:   3'- -UGGCAGCUa----------CUUGcACGGCCA------UCCUG- -5'
18282 5' -54.9 NC_004681.1 + 28121 0.71 0.553794
Target:  5'- cGCCGUCGGUcuuGCugccaccGCUGGUAGGACu -3'
miRNA:   3'- -UGGCAGCUAcu-UGca-----CGGCCAUCCUG- -5'
18282 5' -54.9 NC_004681.1 + 12407 0.71 0.532876
Target:  5'- cGCuCGUCGGUGAGCcgGUGaCGGacgAGGACg -3'
miRNA:   3'- -UG-GCAGCUACUUG--CACgGCCa--UCCUG- -5'
18282 5' -54.9 NC_004681.1 + 30505 0.71 0.511225
Target:  5'- gACCGUCcuggaGAUGAuccACG-GCCGGUaccagccGGGACg -3'
miRNA:   3'- -UGGCAG-----CUACU---UGCaCGGCCA-------UCCUG- -5'
18282 5' -54.9 NC_004681.1 + 53020 0.72 0.491958
Target:  5'- cGCaCGUCGAUGAACG-GCuCGGagucGGGCa -3'
miRNA:   3'- -UG-GCAGCUACUUGCaCG-GCCau--CCUG- -5'
18282 5' -54.9 NC_004681.1 + 66725 0.73 0.45255
Target:  5'- cGCCGUCca-GAGCGauagaGCCGGUGGGAa -3'
miRNA:   3'- -UGGCAGcuaCUUGCa----CGGCCAUCCUg -5'
18282 5' -54.9 NC_004681.1 + 21463 1.08 0.001902
Target:  5'- gACCGUCGAUGAACGUGCCGGUAGGACc -3'
miRNA:   3'- -UGGCAGCUACUUGCACGGCCAUCCUG- -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.