miRNA display CGI


Results 1 - 20 of 21 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
23210 3' -54.2 NC_005259.1 + 68116 0.66 0.865052
Target:  5'- aGuUCGGGUCGAGagcaGCGgcgagcUCGgcAGGAUGc -3'
miRNA:   3'- aCuAGCCCAGCUUg---CGC------AGC--UCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 56806 0.66 0.865052
Target:  5'- aGAUCgGGGUCGGuggccacccauuGCGCGccuaUGuGGAUGa -3'
miRNA:   3'- aCUAG-CCCAGCU------------UGCGCa---GCuCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 39917 0.66 0.857002
Target:  5'- cGAUCc-GUCGAGggcCGCGUCGAGGu-- -3'
miRNA:   3'- aCUAGccCAGCUU---GCGCAGCUCCuac -5'
23210 3' -54.2 NC_005259.1 + 54076 0.66 0.848726
Target:  5'- cUGcgUGaGGUCGGugGCGUCGcgcaucaccGGGGUc -3'
miRNA:   3'- -ACuaGC-CCAGCUugCGCAGC---------UCCUAc -5'
23210 3' -54.2 NC_005259.1 + 45458 0.67 0.804235
Target:  5'- uUGAUCGGGgugcCGAACGgGcCGAGcuucuggccgcuGGUGg -3'
miRNA:   3'- -ACUAGCCCa---GCUUGCgCaGCUC------------CUAC- -5'
23210 3' -54.2 NC_005259.1 + 67915 0.68 0.765468
Target:  5'- cGG-CGaGGUCaAGCGCGUaggucgCGAGGAUGa -3'
miRNA:   3'- aCUaGC-CCAGcUUGCGCA------GCUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 397 0.68 0.765468
Target:  5'- aGA-CGGG-CGAauaccagcaGCGCGugcccgUCGAGGAUGa -3'
miRNA:   3'- aCUaGCCCaGCU---------UGCGC------AGCUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 40053 0.68 0.745251
Target:  5'- gUGAUCGGGUCGGuCGCGaUGAcccauGGGc- -3'
miRNA:   3'- -ACUAGCCCAGCUuGCGCaGCU-----CCUac -5'
23210 3' -54.2 NC_005259.1 + 51653 0.69 0.702522
Target:  5'- cGAaCGGGUugccgcgCGGGCGCGUCGGGcacgggcgcgcGAUGg -3'
miRNA:   3'- aCUaGCCCA-------GCUUGCGCAGCUC-----------CUAC- -5'
23210 3' -54.2 NC_005259.1 + 53012 0.69 0.692968
Target:  5'- cGAcUGGGcgcugCGGugGCGUCGAGGcaucGUGa -3'
miRNA:   3'- aCUaGCCCa----GCUugCGCAGCUCC----UAC- -5'
23210 3' -54.2 NC_005259.1 + 68299 0.69 0.660833
Target:  5'- -cAUCGGGaUCGGGCGCGUCcggcgacGGGAUc -3'
miRNA:   3'- acUAGCCC-AGCUUGCGCAGc------UCCUAc -5'
23210 3' -54.2 NC_005259.1 + 32042 0.7 0.61767
Target:  5'- cGcAUCGGGUUgcugagGAACGCGUCGAacGAUGc -3'
miRNA:   3'- aC-UAGCCCAG------CUUGCGCAGCUc-CUAC- -5'
23210 3' -54.2 NC_005259.1 + 63279 0.71 0.57363
Target:  5'- uUGGUCGGGUCGAugccuucACGUG-CGAgcagcggggucaGGAUGu -3'
miRNA:   3'- -ACUAGCCCAGCU-------UGCGCaGCU------------CCUAC- -5'
23210 3' -54.2 NC_005259.1 + 46986 0.72 0.501498
Target:  5'- aUGAUCGGGcCGAggguGCGCcacgCGAGGAa- -3'
miRNA:   3'- -ACUAGCCCaGCU----UGCGca--GCUCCUac -5'
23210 3' -54.2 NC_005259.1 + 42037 0.73 0.451801
Target:  5'- -uGUCGGGUCGAcuGCGCuGUCcucGGGGUGg -3'
miRNA:   3'- acUAGCCCAGCU--UGCG-CAGc--UCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 63231 0.75 0.369696
Target:  5'- aGAUCgGGGUCGcuggucagacccGACGCGUCguaccaGAGGAUGu -3'
miRNA:   3'- aCUAG-CCCAGC------------UUGCGCAG------CUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 10648 0.79 0.204009
Target:  5'- uUGGccUCGcGGUCGAGCGCcUUGAGGAUGg -3'
miRNA:   3'- -ACU--AGC-CCAGCUUGCGcAGCUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 67422 0.8 0.171369
Target:  5'- -cAUCGGGgugccgggcucacgcUUGAGCGCGUCGGGGAUGc -3'
miRNA:   3'- acUAGCCC---------------AGCUUGCGCAGCUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 36446 0.81 0.165074
Target:  5'- ---cCGaGGUCGAcCGCGUCGAGGGUGa -3'
miRNA:   3'- acuaGC-CCAGCUuGCGCAGCUCCUAC- -5'
23210 3' -54.2 NC_005259.1 + 31069 0.9 0.039568
Target:  5'- uUGAUCGGGUCGGcgagguucccgaGCGCGUCGGGGAUc -3'
miRNA:   3'- -ACUAGCCCAGCU------------UGCGCAGCUCCUAc -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.