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
27179 3' -59.3 NC_005832.1 + 10954 0.66 0.70408
Target:  5'- cGGGGAGguGcuGGGAggcacCGGCaUGAcCCAc -3'
miRNA:   3'- -CCCCUCguCu-CCCUa----GCCG-GCUuGGU- -5'
27179 3' -59.3 NC_005832.1 + 9895 0.66 0.69807
Target:  5'- gGGGacggcgcuguacucaGGGCGGAGGGAggcaGGCUGGAgCu -3'
miRNA:   3'- -CCC---------------CUCGUCUCCCUag--CCGGCUUgGu -5'
27179 3' -59.3 NC_005832.1 + 46259 0.66 0.694052
Target:  5'- aGGGGuGUccugauggccaGGAGGGAcaacUCuGGCCuGGCCAg -3'
miRNA:   3'- -CCCCuCG-----------UCUCCCU----AG-CCGGcUUGGU- -5'
27179 3' -59.3 NC_005832.1 + 55591 0.67 0.612697
Target:  5'- aGGaGGGCAGAGGcGGUCaGcGCCGccccAGCCAc -3'
miRNA:   3'- cCC-CUCGUCUCC-CUAG-C-CGGC----UUGGU- -5'
27179 3' -59.3 NC_005832.1 + 44079 0.67 0.612697
Target:  5'- aGGaGGGUAGAGGGAaagagaaaggCGGCCaagaggcccguGGACCAa -3'
miRNA:   3'- cCC-CUCGUCUCCCUa---------GCCGG-----------CUUGGU- -5'
27179 3' -59.3 NC_005832.1 + 50943 0.67 0.611678
Target:  5'- cGGGAcacgacgGUAGGacuGGAUCGGCCGGuCCAg -3'
miRNA:   3'- cCCCU-------CGUCUc--CCUAGCCGGCUuGGU- -5'
27179 3' -59.3 NC_005832.1 + 29903 0.67 0.602511
Target:  5'- uGGGGcGGCGGGGGcGG-CGGUgGAgGCCAa -3'
miRNA:   3'- -CCCC-UCGUCUCC-CUaGCCGgCU-UGGU- -5'
27179 3' -59.3 NC_005832.1 + 7611 0.68 0.58221
Target:  5'- cGGGAGUGGAGGGGUCcaccuucaGCgGcACCAc -3'
miRNA:   3'- cCCCUCGUCUCCCUAGc-------CGgCuUGGU- -5'
27179 3' -59.3 NC_005832.1 + 75003 0.68 0.562053
Target:  5'- aGGGccccGUAGAGGGAccccaGGuCCGAGCCGu -3'
miRNA:   3'- cCCCu---CGUCUCCCUag---CC-GGCUUGGU- -5'
27179 3' -59.3 NC_005832.1 + 35997 0.68 0.552043
Target:  5'- cGGGGcGUuguagugccuAGAGGGccugaCGGCCGAGCUg -3'
miRNA:   3'- -CCCCuCG----------UCUCCCua---GCCGGCUUGGu -5'
27179 3' -59.3 NC_005832.1 + 32640 0.69 0.532194
Target:  5'- cGGGGAGaggcuGGAGGuGUCuGCCGAagGCCGu -3'
miRNA:   3'- -CCCCUCg----UCUCCcUAGcCGGCU--UGGU- -5'
27179 3' -59.3 NC_005832.1 + 117 0.69 0.492369
Target:  5'- gGGGGAGUGGGGGGAUCuGGUUugggaggagugggGGAUCu -3'
miRNA:   3'- -CCCCUCGUCUCCCUAG-CCGG-------------CUUGGu -5'
27179 3' -59.3 NC_005832.1 + 94375 0.69 0.483808
Target:  5'- uGGGaGAGCAGGGGaGA-CGGgUGGACUg -3'
miRNA:   3'- -CCC-CUCGUCUCC-CUaGCCgGCUUGGu -5'
27179 3' -59.3 NC_005832.1 + 43558 0.7 0.437634
Target:  5'- cGGGGGGCGGAGGauuGUCGuauCUGGACCc -3'
miRNA:   3'- -CCCCUCGUCUCCc--UAGCc--GGCUUGGu -5'
27179 3' -59.3 NC_005832.1 + 80572 0.71 0.402575
Target:  5'- uGGGAGCAGccAGGGGg-GGCaUGGGCCAa -3'
miRNA:   3'- cCCCUCGUC--UCCCUagCCG-GCUUGGU- -5'
27179 3' -59.3 NC_005832.1 + 64083 0.71 0.385727
Target:  5'- -uGGAGCAGAGG--UCGGCCuugacaGAGCCGg -3'
miRNA:   3'- ccCCUCGUCUCCcuAGCCGG------CUUGGU- -5'
27179 3' -59.3 NC_005832.1 + 10791 0.72 0.345694
Target:  5'- -aGGAGguG-GGGAUCGGCUGcggaGGCCAg -3'
miRNA:   3'- ccCCUCguCuCCCUAGCCGGC----UUGGU- -5'
27179 3' -59.3 NC_005832.1 + 94279 0.75 0.249954
Target:  5'- cGGGGAGCGcGuGGGAgaaGGCCGcagaGACCGu -3'
miRNA:   3'- -CCCCUCGU-CuCCCUag-CCGGC----UUGGU- -5'
27179 3' -59.3 NC_005832.1 + 39375 1.1 0.000801
Target:  5'- aGGGGAGCAGAGGGAUCGGCCGAACCAg -3'
miRNA:   3'- -CCCCUCGUCUCCCUAGCCGGCUUGGU- -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.