miRNA display CGI


Results 1 - 14 of 14 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
28425 5' -54.3 NC_005946.1 + 22172 0.66 0.901701
Target:  5'- uGCCCUGGccGCGGCcgcuccccugaccGCCGCAGcgGGAa -3'
miRNA:   3'- cCGGGACC--UGCUGaua----------CGGCGUU--UCU- -5'
28425 5' -54.3 NC_005946.1 + 20881 0.66 0.901042
Target:  5'- cGCCCUGGAgcaGGCc--GCCGCGGuGGc -3'
miRNA:   3'- cCGGGACCUg--CUGauaCGGCGUUuCU- -5'
28425 5' -54.3 NC_005946.1 + 9720 0.66 0.901042
Target:  5'- gGGCCCUGGACauGACggccauccUGuuGuCGGGGGu -3'
miRNA:   3'- -CCGGGACCUG--CUGau------ACggC-GUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 41512 0.67 0.856296
Target:  5'- -cCCCUGGAUccccuugGAcCUGUGCCGCcacGGGGAc -3'
miRNA:   3'- ccGGGACCUG-------CU-GAUACGGCG---UUUCU- -5'
28425 5' -54.3 NC_005946.1 + 7423 0.68 0.814441
Target:  5'- uGCCCUGaACG-CUAcgGCCGguAGGAa -3'
miRNA:   3'- cCGGGACcUGCuGAUa-CGGCguUUCU- -5'
28425 5' -54.3 NC_005946.1 + 7394 0.68 0.805342
Target:  5'- aGGCCCgcgaGGACgcgagGACcgaGUGCCGCGGAu- -3'
miRNA:   3'- -CCGGGa---CCUG-----CUGa--UACGGCGUUUcu -5'
28425 5' -54.3 NC_005946.1 + 12909 0.68 0.804423
Target:  5'- uGCCCgcuuuguUGGGCGcgUcgGCCGCGGAGGc -3'
miRNA:   3'- cCGGG-------ACCUGCugAuaCGGCGUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 49576 0.68 0.799801
Target:  5'- gGGCCCcGGGgGACaccacaaaccccccgUuUGCCGCAAAGc -3'
miRNA:   3'- -CCGGGaCCUgCUG---------------AuACGGCGUUUCu -5'
28425 5' -54.3 NC_005946.1 + 72187 0.69 0.777071
Target:  5'- --gCCUGGugGACUcuagGuCCGUAAAGAg -3'
miRNA:   3'- ccgGGACCugCUGAua--C-GGCGUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 44702 0.71 0.633001
Target:  5'- gGGCCCUGGugGccCUGacUGCUGCAc--- -3'
miRNA:   3'- -CCGGGACCugCu-GAU--ACGGCGUuucu -5'
28425 5' -54.3 NC_005946.1 + 55355 0.73 0.55921
Target:  5'- cGGUCUUGGccgcugcacaaGCGGCUAUGCaaGCAGAGGa -3'
miRNA:   3'- -CCGGGACC-----------UGCUGAUACGg-CGUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 76567 0.74 0.507964
Target:  5'- gGGCCCgugGGAgCGGCUggGCCucagggGCAGAGGg -3'
miRNA:   3'- -CCGGGa--CCU-GCUGAuaCGG------CGUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 79317 0.78 0.291719
Target:  5'- cGGCCCUGGAUaaagacgcgGACgcgGCgGCAGAGAa -3'
miRNA:   3'- -CCGGGACCUG---------CUGauaCGgCGUUUCU- -5'
28425 5' -54.3 NC_005946.1 + 81661 1.11 0.00192
Target:  5'- aGGCCCUGGACGACUAUGCCGCAAAGAu -3'
miRNA:   3'- -CCGGGACCUGCUGAUACGGCGUUUCU- -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.