miRNA display CGI


Results 1 - 20 of 42 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
26554 3' -51.8 NC_005357.1 + 11056 1.09 0.001704
Target:  5'- cCGCAUUGGCGACGAACUGCUCGAACGu -3'
miRNA:   3'- -GCGUAACCGCUGCUUGACGAGCUUGC- -5'
26554 3' -51.8 NC_005357.1 + 28053 0.79 0.205469
Target:  5'- -aCGUcGGCGACGGuCUGCUCGAACa -3'
miRNA:   3'- gcGUAaCCGCUGCUuGACGAGCUUGc -5'
26554 3' -51.8 NC_005357.1 + 4590 0.77 0.283804
Target:  5'- gCGCca-GGCGAgGAACUGCUCGGccucgGCGa -3'
miRNA:   3'- -GCGuaaCCGCUgCUUGACGAGCU-----UGC- -5'
26554 3' -51.8 NC_005357.1 + 9734 0.76 0.306758
Target:  5'- uGCAcgcGGCGagcacgucgGCGAACUGCUCGGGCu -3'
miRNA:   3'- gCGUaa-CCGC---------UGCUUGACGAGCUUGc -5'
26554 3' -51.8 NC_005357.1 + 24661 0.72 0.473002
Target:  5'- uCGCGc--GCGACucGCUGCUCGAACu -3'
miRNA:   3'- -GCGUaacCGCUGcuUGACGAGCUUGc -5'
26554 3' -51.8 NC_005357.1 + 6747 0.72 0.477203
Target:  5'- gGCcUUGGCGccccacuuuuccuugGCGAcCUGCUCGAugGc -3'
miRNA:   3'- gCGuAACCGC---------------UGCUuGACGAGCUugC- -5'
26554 3' -51.8 NC_005357.1 + 31282 0.72 0.525635
Target:  5'- gCGCA--GGCGGCccagcagcaggccGAACUGCUCGcACGu -3'
miRNA:   3'- -GCGUaaCCGCUG-------------CUUGACGAGCuUGC- -5'
26554 3' -51.8 NC_005357.1 + 17360 0.71 0.548873
Target:  5'- gCGCug-GGUGGCGAuGCUGCcCGAugGu -3'
miRNA:   3'- -GCGuaaCCGCUGCU-UGACGaGCUugC- -5'
26554 3' -51.8 NC_005357.1 + 13024 0.71 0.560053
Target:  5'- gCGCAgUGGCGACGGccucgucaucGCguUGCUUGAguGCGg -3'
miRNA:   3'- -GCGUaACCGCUGCU----------UG--ACGAGCU--UGC- -5'
26554 3' -51.8 NC_005357.1 + 27836 0.71 0.570167
Target:  5'- cCGCggUGGCGcCGGccgcgccGCUGCUCaaGAACGu -3'
miRNA:   3'- -GCGuaACCGCuGCU-------UGACGAG--CUUGC- -5'
26554 3' -51.8 NC_005357.1 + 11355 0.71 0.571294
Target:  5'- uGCAguacGGUGGCGAcCUGCUCGccCGg -3'
miRNA:   3'- gCGUaa--CCGCUGCUuGACGAGCuuGC- -5'
26554 3' -51.8 NC_005357.1 + 17738 0.71 0.58259
Target:  5'- gCGCAuUUGGUGGCGAaaccccagguguGCaGUUCGAGCa -3'
miRNA:   3'- -GCGU-AACCGCUGCU------------UGaCGAGCUUGc -5'
26554 3' -51.8 NC_005357.1 + 15390 0.7 0.593929
Target:  5'- cCGCGUgcgGGcCGGCGAAgaUGC-CGGACGa -3'
miRNA:   3'- -GCGUAa--CC-GCUGCUUg-ACGaGCUUGC- -5'
26554 3' -51.8 NC_005357.1 + 9898 0.7 0.616703
Target:  5'- gCGCG-UGGCGAuguCGAGCUGCacuUCGAGg- -3'
miRNA:   3'- -GCGUaACCGCU---GCUUGACG---AGCUUgc -5'
26554 3' -51.8 NC_005357.1 + 2732 0.7 0.616703
Target:  5'- aCGC-UUGaGCG-CGGcccggcGCUGCUCGGGCGu -3'
miRNA:   3'- -GCGuAAC-CGCuGCU------UGACGAGCUUGC- -5'
26554 3' -51.8 NC_005357.1 + 8530 0.7 0.628117
Target:  5'- gGCGUaGGCGAUGAAacGCUCGAcagccGCGc -3'
miRNA:   3'- gCGUAaCCGCUGCUUgaCGAGCU-----UGC- -5'
26554 3' -51.8 NC_005357.1 + 29285 0.69 0.650945
Target:  5'- aCGUGguaGGCGACGAACUGCUgGc--- -3'
miRNA:   3'- -GCGUaa-CCGCUGCUUGACGAgCuugc -5'
26554 3' -51.8 NC_005357.1 + 5468 0.69 0.673698
Target:  5'- cCGCcg-GGCGGCGAGgUGUUgcCGAugGg -3'
miRNA:   3'- -GCGuaaCCGCUGCUUgACGA--GCUugC- -5'
26554 3' -51.8 NC_005357.1 + 37173 0.69 0.678232
Target:  5'- aCGCAUUGcCGAccccgaccugccggcCGAACUGCgCGAACu -3'
miRNA:   3'- -GCGUAACcGCU---------------GCUUGACGaGCUUGc -5'
26554 3' -51.8 NC_005357.1 + 26669 0.69 0.685017
Target:  5'- uCGCAccaUUGGCGgcaACGAGgUGCgguaugUCGAGCGc -3'
miRNA:   3'- -GCGU---AACCGC---UGCUUgACG------AGCUUGC- -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.