miRNA display CGI


Results 1 - 20 of 30 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
27026 3' -59.7 NC_005832.1 + 37948 0.65 0.714387
Target:  5'- aGGCGugcCAGGGCCGUaccccauCGCCacCGUGGGAg -3'
miRNA:   3'- cCUGU---GUCCUGGCG-------GCGGc-GCAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 65581 0.66 0.705495
Target:  5'- ---gGCAGGACCcugcCCGCCGgG-GGGAg -3'
miRNA:   3'- ccugUGUCCUGGc---GGCGGCgCaUCCU- -5'
27026 3' -59.7 NC_005832.1 + 60160 0.66 0.698545
Target:  5'- cGGACguagcuccccucaACAGGucuaugugguuccugACUGCCGCCGCGauaccccauGGAg -3'
miRNA:   3'- -CCUG-------------UGUCC---------------UGGCGGCGGCGCau-------CCU- -5'
27026 3' -59.7 NC_005832.1 + 14516 0.66 0.698545
Target:  5'- cGACGCAuacugcgagccguguGGACUGCgcaacaaUGUCGCGUAGGc -3'
miRNA:   3'- cCUGUGU---------------CCUGGCG-------GCGGCGCAUCCu -5'
27026 3' -59.7 NC_005832.1 + 1272 0.66 0.685568
Target:  5'- uGGAUAUAGaGGCCGCCGaCCuguccuCGcGGGAc -3'
miRNA:   3'- -CCUGUGUC-CUGGCGGC-GGc-----GCaUCCU- -5'
27026 3' -59.7 NC_005832.1 + 66122 0.66 0.675535
Target:  5'- cGACGCAGagugugaaaaGAUUGCCGCgGCGggaauGGAg -3'
miRNA:   3'- cCUGUGUC----------CUGGCGGCGgCGCau---CCU- -5'
27026 3' -59.7 NC_005832.1 + 35746 0.66 0.675535
Target:  5'- aGACG-GGGGCUGCUGCUGCuUGGGu -3'
miRNA:   3'- cCUGUgUCCUGGCGGCGGCGcAUCCu -5'
27026 3' -59.7 NC_005832.1 + 47403 0.67 0.655374
Target:  5'- cGGugACGGGAUCcuuGuuGCUGCccAGGAg -3'
miRNA:   3'- -CCugUGUCCUGG---CggCGGCGcaUCCU- -5'
27026 3' -59.7 NC_005832.1 + 98713 0.68 0.594702
Target:  5'- aGGCACAGGGCCGUgaaCGCCGgccCGUAc-- -3'
miRNA:   3'- cCUGUGUCCUGGCG---GCGGC---GCAUccu -5'
27026 3' -59.7 NC_005832.1 + 10517 0.68 0.593695
Target:  5'- aGGgACAGG-CCGCUGCCGUugacguacucgcaGUAGGc -3'
miRNA:   3'- cCUgUGUCCuGGCGGCGGCG-------------CAUCCu -5'
27026 3' -59.7 NC_005832.1 + 24731 0.68 0.56463
Target:  5'- aGACcaAGGGCCGcCCGCUGCucAGGAg -3'
miRNA:   3'- cCUGugUCCUGGC-GGCGGCGcaUCCU- -5'
27026 3' -59.7 NC_005832.1 + 97112 0.68 0.544801
Target:  5'- uGGA-GCAGG-CCGCCGCgGUGgcccugAGGGc -3'
miRNA:   3'- -CCUgUGUCCuGGCGGCGgCGCa-----UCCU- -5'
27026 3' -59.7 NC_005832.1 + 55991 0.69 0.534971
Target:  5'- aGACACGGGGCCcgcguaGCCGUaCGCGgcccuGGGu -3'
miRNA:   3'- cCUGUGUCCUGG------CGGCG-GCGCau---CCU- -5'
27026 3' -59.7 NC_005832.1 + 95169 0.69 0.525204
Target:  5'- -aGCGCAGGuacaaacCCaCCGUCGUGUGGGAc -3'
miRNA:   3'- ccUGUGUCCu------GGcGGCGGCGCAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 73025 0.69 0.515505
Target:  5'- cGGACcguCAGGACCcuuugCGCC-CGUGGGAc -3'
miRNA:   3'- -CCUGu--GUCCUGGcg---GCGGcGCAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 662 0.69 0.50588
Target:  5'- cGGACGC-GGACC-CCGCCGgGggcuGGu -3'
miRNA:   3'- -CCUGUGuCCUGGcGGCGGCgCau--CCu -5'
27026 3' -59.7 NC_005832.1 + 97163 0.69 0.486867
Target:  5'- gGGAgGcCAGGuCCGCCaCCaCGUAGGAc -3'
miRNA:   3'- -CCUgU-GUCCuGGCGGcGGcGCAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 36020 0.69 0.486867
Target:  5'- cGGGCccuCAGGGCCagagcuCCuaCGCGUGGGAu -3'
miRNA:   3'- -CCUGu--GUCCUGGc-----GGcgGCGCAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 72061 0.69 0.486867
Target:  5'- cGugAUAGuGGCgGCCGUCGUgGUGGGAg -3'
miRNA:   3'- cCugUGUC-CUGgCGGCGGCG-CAUCCU- -5'
27026 3' -59.7 NC_005832.1 + 95554 0.7 0.456263
Target:  5'- uGGACACGGGcuagccuccgcgGCCGCUGCCG-GUGacugucucauugccGGAg -3'
miRNA:   3'- -CCUGUGUCC------------UGGCGGCGGCgCAU--------------CCU- -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.