miRNA display CGI


Results 1 - 20 of 26 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
28375 5' -57.5 NC_005946.1 + 36204 1.11 0.001027
Target:  5'- aUGGCCUCUUUCCUGUCCCCCGACAGCc -3'
miRNA:   3'- -ACCGGAGAAAGGACAGGGGGCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 36528 0.76 0.253128
Target:  5'- aUGGCCUCUgUCCaGUCCCCgaGACAa- -3'
miRNA:   3'- -ACCGGAGAaAGGaCAGGGGg-CUGUcg -5'
28375 5' -57.5 NC_005946.1 + 34558 0.74 0.336099
Target:  5'- gGGCCU---UCCUGUCCCuccaggCCGGCAGg -3'
miRNA:   3'- aCCGGAgaaAGGACAGGG------GGCUGUCg -5'
28375 5' -57.5 NC_005946.1 + 19779 0.73 0.367844
Target:  5'- aGGCCguccUCCUGUCCCUggugaucaUGGCAGCc -3'
miRNA:   3'- aCCGGagaaAGGACAGGGG--------GCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 14854 0.7 0.503704
Target:  5'- --uUCUCggUCCUGUCCCUguacauugCGACGGCg -3'
miRNA:   3'- accGGAGaaAGGACAGGGG--------GCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 33259 0.7 0.533518
Target:  5'- gGGCacag-UCC--UCCCCCGGCAGCc -3'
miRNA:   3'- aCCGgagaaAGGacAGGGGGCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 65105 0.7 0.543598
Target:  5'- gGGCCUCUaUCaggagaaUGUCCgCaGACAGCc -3'
miRNA:   3'- aCCGGAGAaAGg------ACAGGgGgCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 86148 0.69 0.615521
Target:  5'- uUGGUCUCUUcagcggUCCucaUGUCCCUguCGAgGGCu -3'
miRNA:   3'- -ACCGGAGAA------AGG---ACAGGGG--GCUgUCG- -5'
28375 5' -57.5 NC_005946.1 + 68828 0.68 0.636298
Target:  5'- cUGGCCUCagagUCCagGUCCCacagcuCCGAgcuCAGCc -3'
miRNA:   3'- -ACCGGAGaa--AGGa-CAGGG------GGCU---GUCG- -5'
28375 5' -57.5 NC_005946.1 + 96941 0.68 0.646685
Target:  5'- -cGUCUCUgccaCUGUCCUCUGACuGCu -3'
miRNA:   3'- acCGGAGAaag-GACAGGGGGCUGuCG- -5'
28375 5' -57.5 NC_005946.1 + 437 0.68 0.657061
Target:  5'- gGGCCUCcaUCCUccGUCUCCUGucguacuccuuCAGCa -3'
miRNA:   3'- aCCGGAGaaAGGA--CAGGGGGCu----------GUCG- -5'
28375 5' -57.5 NC_005946.1 + 86435 0.68 0.667416
Target:  5'- aGGCCUCUg---UGUCUUCagaaGACAGCu -3'
miRNA:   3'- aCCGGAGAaaggACAGGGGg---CUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 98142 0.68 0.667416
Target:  5'- aUGGCCUgUcUCUcGUCCCCggugaugagggCGACGGUc -3'
miRNA:   3'- -ACCGGAgAaAGGaCAGGGG-----------GCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 89860 0.68 0.674647
Target:  5'- gUGGCCUCg--CCggggacgaugaccgUG-CCCCCGuCAGUc -3'
miRNA:   3'- -ACCGGAGaaaGG--------------ACaGGGGGCuGUCG- -5'
28375 5' -57.5 NC_005946.1 + 49097 0.67 0.708449
Target:  5'- cUGGCCUUccccgcCCUGUCCaccaCCUGACccgAGCa -3'
miRNA:   3'- -ACCGGAGaaa---GGACAGG----GGGCUG---UCG- -5'
28375 5' -57.5 NC_005946.1 + 28520 0.67 0.718565
Target:  5'- gUGGCCuggUCggcgUCCuUGaUgCCCGGCAGCg -3'
miRNA:   3'- -ACCGG---AGaa--AGG-ACaGgGGGCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 57042 0.67 0.718565
Target:  5'- cGGCCUgCUc-CCUGUCUgUCGGCuGCc -3'
miRNA:   3'- aCCGGA-GAaaGGACAGGgGGCUGuCG- -5'
28375 5' -57.5 NC_005946.1 + 70151 0.67 0.728604
Target:  5'- aGGCCUUaaacucgUCCUcugGUCUCCCaGCGGUg -3'
miRNA:   3'- aCCGGAGaa-----AGGA---CAGGGGGcUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 73522 0.67 0.728604
Target:  5'- gUGGCggaUCUggCCaagcacgUCCCCGACGGCa -3'
miRNA:   3'- -ACCGg--AGAaaGGaca----GGGGGCUGUCG- -5'
28375 5' -57.5 NC_005946.1 + 31025 0.66 0.738557
Target:  5'- aGGCCUCaaagacUCUugagaguuUGUCCCCCGugAu- -3'
miRNA:   3'- aCCGGAGaa----AGG--------ACAGGGGGCugUcg -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.