miRNA display CGI


Results 1 - 20 of 47 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
23199 5' -57.4 NC_005259.1 + 6696 0.66 0.683846
Target:  5'- -aGAGug-GCgCGACACGaucaACCGGCAg -3'
miRNA:   3'- cgCUCuuaCG-GCUGUGCcg--UGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 38441 0.66 0.641371
Target:  5'- uCGAGAccgaaaAUGCCGuGCGagGGCACCgagGGCAg -3'
miRNA:   3'- cGCUCU------UACGGC-UGUg-CCGUGG---CCGU- -5'
23199 5' -57.4 NC_005259.1 + 50678 0.66 0.641371
Target:  5'- cGCGucGGUGCCGACGaGGCGCU-GCu -3'
miRNA:   3'- -CGCucUUACGGCUGUgCCGUGGcCGu -5'
23199 5' -57.4 NC_005259.1 + 54689 0.66 0.662662
Target:  5'- aGCGAGAccGUGUCGAgGCGGguggccucaGCCuGGUAc -3'
miRNA:   3'- -CGCUCU--UACGGCUgUGCCg--------UGG-CCGU- -5'
23199 5' -57.4 NC_005259.1 + 28967 0.66 0.662662
Target:  5'- cCGAGGucgGUGCCGAggcCGCGaGCGCCcGCu -3'
miRNA:   3'- cGCUCU---UACGGCU---GUGC-CGUGGcCGu -5'
23199 5' -57.4 NC_005259.1 + 8076 0.66 0.662662
Target:  5'- uCGAGAucGUGCCG-CGCuGGCgugACCGuGCGa -3'
miRNA:   3'- cGCUCU--UACGGCuGUG-CCG---UGGC-CGU- -5'
23199 5' -57.4 NC_005259.1 + 24083 0.66 0.66691
Target:  5'- cGCGAGAucaCCGGCAgGGCcaacgaaccgaugggACCGGgCGg -3'
miRNA:   3'- -CGCUCUuacGGCUGUgCCG---------------UGGCC-GU- -5'
23199 5' -57.4 NC_005259.1 + 13813 0.66 0.670092
Target:  5'- gGCGAGcaccacgugugcguGAUGaCCGACG-GGCAcauugcCCGGCGa -3'
miRNA:   3'- -CGCUC--------------UUAC-GGCUGUgCCGU------GGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 35703 0.66 0.672212
Target:  5'- gGCGAGGGgucGCUGACGaGGUAuccgcccgacgacCCGGCGc -3'
miRNA:   3'- -CGCUCUUa--CGGCUGUgCCGU-------------GGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 4263 0.66 0.641371
Target:  5'- uGCGAGGAcaacgggcgGCUGcgcugccacgaGCACGG-ACCGGCGg -3'
miRNA:   3'- -CGCUCUUa--------CGGC-----------UGUGCCgUGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 17757 0.66 0.694373
Target:  5'- cGUGAGGccGCCG-CGCGccgggccgagcGCACCGaGCGu -3'
miRNA:   3'- -CGCUCUuaCGGCuGUGC-----------CGUGGC-CGU- -5'
23199 5' -57.4 NC_005259.1 + 49351 0.66 0.694373
Target:  5'- gGCGAGAgGUGCCG-CGCGaugaagagGCCGGUg -3'
miRNA:   3'- -CGCUCU-UACGGCuGUGCcg------UGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 47009 0.66 0.694373
Target:  5'- cGCGAGGAaGCCGAcCACGaccgccuccaGCagGCCGGgGa -3'
miRNA:   3'- -CGCUCUUaCGGCU-GUGC----------CG--UGGCCgU- -5'
23199 5' -57.4 NC_005259.1 + 62720 0.66 0.683846
Target:  5'- gGCGGGGGaucucGCuCGAC-CGG-ACCGGCGg -3'
miRNA:   3'- -CGCUCUUa----CG-GCUGuGCCgUGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 44463 0.66 0.694373
Target:  5'- cCGGGGAUGCCGcCGCccuGGC-CgGGCc -3'
miRNA:   3'- cGCUCUUACGGCuGUG---CCGuGgCCGu -5'
23199 5' -57.4 NC_005259.1 + 30745 0.67 0.576534
Target:  5'- cUGAGAguucaugaacugcAUGCCGACGCcgguGGCACCGcuGCc -3'
miRNA:   3'- cGCUCU-------------UACGGCUGUG----CCGUGGC--CGu -5'
23199 5' -57.4 NC_005259.1 + 33105 0.67 0.598765
Target:  5'- cGCGAGcGUGCCuguagggccACGCGGCagccGCCGcGCGu -3'
miRNA:   3'- -CGCUCuUACGGc--------UGUGCCG----UGGC-CGU- -5'
23199 5' -57.4 NC_005259.1 + 32991 0.68 0.546158
Target:  5'- cCGAGggUGCCGcCAcgcccgauguCGGCAccacagcccauCCGGCu -3'
miRNA:   3'- cGCUCuuACGGCuGU----------GCCGU-----------GGCCGu -5'
23199 5' -57.4 NC_005259.1 + 29933 0.68 0.556581
Target:  5'- cGCGuGGccGCC-ACGCGGC-CCGGUc -3'
miRNA:   3'- -CGCuCUuaCGGcUGUGCCGuGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 67218 0.68 0.525509
Target:  5'- gGCGGGGucgAUGCCGAcCACGGCGgUGuaGg -3'
miRNA:   3'- -CGCUCU---UACGGCU-GUGCCGUgGCcgU- -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.