miRNA display CGI


Results 1 - 20 of 84 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
23298 3' -63.4 NC_005259.1 + 780 0.67 0.337953
Target:  5'- --cCGAggcGGCUGCCcucgGuuGGGUgGCCa -3'
miRNA:   3'- cuaGCUa--CCGGCGGa---CggCCCGgCGG- -5'
23298 3' -63.4 NC_005259.1 + 1353 0.69 0.226206
Target:  5'- --aCGGUgccuacugGGCCGCUcGCCGcGCCGCCc -3'
miRNA:   3'- cuaGCUA--------CCGGCGGaCGGCcCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 1858 0.67 0.30067
Target:  5'- --cCGAgaaaGCCGCC-GCCGcguuccguaagcaGGCCGCCg -3'
miRNA:   3'- cuaGCUac--CGGCGGaCGGC-------------CCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 2167 0.7 0.199889
Target:  5'- cGUCGA--GCCGCCgguUGCCgaggucauGGGCCGCUa -3'
miRNA:   3'- cUAGCUacCGGCGG---ACGG--------CCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 4413 0.66 0.372733
Target:  5'- --aCGAgGGCCGCCaccgcgcgcccgagGUCGaGCCGCCc -3'
miRNA:   3'- cuaGCUaCCGGCGGa-------------CGGCcCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 5353 0.66 0.38597
Target:  5'- -uUCGcAUGaGCCGaCCUaucgcGCCGGGCaaguGCCc -3'
miRNA:   3'- cuAGC-UAC-CGGC-GGA-----CGGCCCGg---CGG- -5'
23298 3' -63.4 NC_005259.1 + 6102 0.68 0.261599
Target:  5'- --cCGAga-UCGCCgagGCCGaGGCCGCCg -3'
miRNA:   3'- cuaGCUaccGGCGGa--CGGC-CCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 6921 0.67 0.315625
Target:  5'- cAUCGAgaaccGCCGCCgccuugagGCCGagcucGCCGCCg -3'
miRNA:   3'- cUAGCUac---CGGCGGa-------CGGCc----CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 8305 0.67 0.315625
Target:  5'- --aCGGaaacGCCGCCuUGUCGGaGCUGCCg -3'
miRNA:   3'- cuaGCUac--CGGCGG-ACGGCC-CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 8661 0.7 0.210081
Target:  5'- uGGUCG--GGCUGCCacgcggGCaacgGGGCCGCCu -3'
miRNA:   3'- -CUAGCuaCCGGCGGa-----CGg---CCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 8861 0.68 0.27436
Target:  5'- --gCGugcccGCCGCCUGCCGcacccacGCCGCCu -3'
miRNA:   3'- cuaGCuac--CGGCGGACGGCc------CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 9984 0.68 0.260973
Target:  5'- cGGUCGA-GGUgGCCaGCCGGGgacugauCCGCg -3'
miRNA:   3'- -CUAGCUaCCGgCGGaCGGCCC-------GGCGg -5'
23298 3' -63.4 NC_005259.1 + 13422 0.7 0.20493
Target:  5'- --cCGG-GGUCGCC-GCCGGGgCCGCg -3'
miRNA:   3'- cuaGCUaCCGGCGGaCGGCCC-GGCGg -5'
23298 3' -63.4 NC_005259.1 + 14307 0.74 0.113299
Target:  5'- cGGUgCGuAUGGCCGCCcucgacGCCgccgcccgcgugcGGGCCGCCg -3'
miRNA:   3'- -CUA-GC-UACCGGCGGa-----CGG-------------CCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 15155 0.68 0.267918
Target:  5'- -cUCGGUGGCCGag-GCCGaGGCCa-- -3'
miRNA:   3'- cuAGCUACCGGCggaCGGC-CCGGcgg -5'
23298 3' -63.4 NC_005259.1 + 17752 0.74 0.10496
Target:  5'- cGAUCcGUgaGGCCGCCgcgcGCCGGGCCGa- -3'
miRNA:   3'- -CUAGcUA--CCGGCGGa---CGGCCCGGCgg -5'
23298 3' -63.4 NC_005259.1 + 18698 0.66 0.361407
Target:  5'- -cUUGAgcacGGCgGUCUGaccucgaucaUCGGGCCGCCc -3'
miRNA:   3'- cuAGCUa---CCGgCGGAC----------GGCCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 19247 1.09 0.000224
Target:  5'- uGAUCGAUGGCCGCCUGCCGGGCCGCCc -3'
miRNA:   3'- -CUAGCUACCGGCGGACGGCCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 19855 0.7 0.215343
Target:  5'- -cUCGGugUGGCgcucgCGCCcGCCGGGaUCGCCg -3'
miRNA:   3'- cuAGCU--ACCG-----GCGGaCGGCCC-GGCGG- -5'
23298 3' -63.4 NC_005259.1 + 20105 0.7 0.215343
Target:  5'- --gUGGUGaGCCGCCgucucaagGCCGcacuGGCUGCCg -3'
miRNA:   3'- cuaGCUAC-CGGCGGa-------CGGC----CCGGCGG- -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.