miRNA display CGI


Results 1 - 20 of 23 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
28446 5' -59.3 NC_005946.1 + 36271 0.66 0.701282
Target:  5'- gUGGGCUcCGgcggcgguggcggGUCUGGgGGGAGcGGCCu -3'
miRNA:   3'- -ACUCGGaGU-------------UAGGCCgCCCUCcUCGG- -5'
28446 5' -59.3 NC_005946.1 + 14584 0.66 0.692205
Target:  5'- aGAGCCUgGcgUCGGaCGuugccaugaGGAGG-GCCg -3'
miRNA:   3'- aCUCGGAgUuaGGCC-GC---------CCUCCuCGG- -5'
28446 5' -59.3 NC_005946.1 + 3480 0.66 0.670879
Target:  5'- --cGCCUCGgacGUCCuccuaaacaccggGGCGGGuguAGGGGUCu -3'
miRNA:   3'- acuCGGAGU---UAGG-------------CCGCCC---UCCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 56484 0.66 0.661691
Target:  5'- cGGGaCCUCAaaagacaucccGUCCuGCGGGGcguggaccucuGGAGUCg -3'
miRNA:   3'- aCUC-GGAGU-----------UAGGcCGCCCU-----------CCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 77247 0.66 0.661691
Target:  5'- cGGGCC--AGUCU-GCGGGcuGGAGCCc -3'
miRNA:   3'- aCUCGGagUUAGGcCGCCCu-CCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 55659 0.66 0.65146
Target:  5'- aUGGGCaaCGGgaCGGUGGGguugAGGAGCCc -3'
miRNA:   3'- -ACUCGgaGUUagGCCGCCC----UCCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 80585 0.67 0.645314
Target:  5'- cUGAGCCUCAgaugucgcuaagaacGUCCGGCcaucccGGGGCa -3'
miRNA:   3'- -ACUCGGAGU---------------UAGGCCGcccu--CCUCGg -5'
28446 5' -59.3 NC_005946.1 + 24723 0.67 0.630961
Target:  5'- cGGGUUUUggugGAUCCGGUuuGGGGGGguugGGCCc -3'
miRNA:   3'- aCUCGGAG----UUAGGCCG--CCCUCC----UCGG- -5'
28446 5' -59.3 NC_005946.1 + 39362 0.67 0.610465
Target:  5'- cUGcGUCUUcuGAUCUGGCGGGGgaucuuacuGGAGUCu -3'
miRNA:   3'- -ACuCGGAG--UUAGGCCGCCCU---------CCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 86208 0.68 0.57986
Target:  5'- aGAGCCUCcAUCC--CGGGuaGAGCCg -3'
miRNA:   3'- aCUCGGAGuUAGGccGCCCucCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 27488 0.68 0.573774
Target:  5'- -uGGCCgCAGUCaCGGCGuccaacugccucauGAGGAGCCu -3'
miRNA:   3'- acUCGGaGUUAG-GCCGCc-------------CUCCUCGG- -5'
28446 5' -59.3 NC_005946.1 + 36450 0.68 0.539608
Target:  5'- aGGGCC-CAAgCCGGUccgugacaGGGAGGAGg- -3'
miRNA:   3'- aCUCGGaGUUaGGCCG--------CCCUCCUCgg -5'
28446 5' -59.3 NC_005946.1 + 23632 0.68 0.539608
Target:  5'- aGAGUCgCAGgccccugccCCGGCGGuGAGGGGUa -3'
miRNA:   3'- aCUCGGaGUUa--------GGCCGCC-CUCCUCGg -5'
28446 5' -59.3 NC_005946.1 + 63711 0.69 0.490725
Target:  5'- -uGGCCUCcAUCaCGGCGcacauGGAGGGGUa -3'
miRNA:   3'- acUCGGAGuUAG-GCCGC-----CCUCCUCGg -5'
28446 5' -59.3 NC_005946.1 + 92544 0.69 0.471747
Target:  5'- cGAGCaugUCGuGUUCGGCgGGGAGGAucuGCCc -3'
miRNA:   3'- aCUCGg--AGU-UAGGCCG-CCCUCCU---CGG- -5'
28446 5' -59.3 NC_005946.1 + 103015 0.7 0.462398
Target:  5'- cGGGUCUCc--CCGGagcaaaGGGAGG-GCCg -3'
miRNA:   3'- aCUCGGAGuuaGGCCg-----CCCUCCuCGG- -5'
28446 5' -59.3 NC_005946.1 + 97201 0.7 0.443089
Target:  5'- gGGGUUUCAcuAUCCucugauuGGUGGGAGGAGgCu -3'
miRNA:   3'- aCUCGGAGU--UAGG-------CCGCCCUCCUCgG- -5'
28446 5' -59.3 NC_005946.1 + 68715 0.71 0.408477
Target:  5'- aGuGCCUgGAUCCacGCGGGuGGAGUa -3'
miRNA:   3'- aCuCGGAgUUAGGc-CGCCCuCCUCGg -5'
28446 5' -59.3 NC_005946.1 + 61634 0.71 0.399877
Target:  5'- gGGGCCUUu-UUCGGCaGGGAGGAcaGCa -3'
miRNA:   3'- aCUCGGAGuuAGGCCG-CCCUCCU--CGg -5'
28446 5' -59.3 NC_005946.1 + 86954 0.72 0.358658
Target:  5'- gGAGCguaCUCGGgaacCUGGCGuGGuGGAGCCa -3'
miRNA:   3'- aCUCG---GAGUUa---GGCCGC-CCuCCUCGG- -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.