miRNA display CGI


Results 1 - 20 of 40 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
26683 3' -56.1 NC_005808.1 + 5223 0.65 0.607827
Target:  5'- cGUCGAGGauguuggacgccaCGGUGUUGACGuugGCGUugGCAc -3'
miRNA:   3'- -UAGCUCCg------------GCCAUAGCUGU---UGCG--CGU- -5'
26683 3' -56.1 NC_005808.1 + 37308 0.66 0.589974
Target:  5'- uAUCGAcGCCGuGgc-CGACAACGcCGCGa -3'
miRNA:   3'- -UAGCUcCGGC-CauaGCUGUUGC-GCGU- -5'
26683 3' -56.1 NC_005808.1 + 18790 0.66 0.578861
Target:  5'- cGUCGAGGCCgccaccuuguuGGUgAUCuGGCGGCGCa-- -3'
miRNA:   3'- -UAGCUCCGG-----------CCA-UAG-CUGUUGCGcgu -5'
26683 3' -56.1 NC_005808.1 + 24961 0.66 0.578861
Target:  5'- -gCGGGGUCGaaGUCGuacuCGACGCGCc -3'
miRNA:   3'- uaGCUCCGGCcaUAGCu---GUUGCGCGu -5'
26683 3' -56.1 NC_005808.1 + 1468 0.66 0.578861
Target:  5'- gGUCGgcggccuccuggcAGGCCGGgguaucgcagugcugGUCgGACAugGCGCc -3'
miRNA:   3'- -UAGC-------------UCCGGCCa--------------UAG-CUGUugCGCGu -5'
26683 3' -56.1 NC_005808.1 + 18842 0.66 0.55678
Target:  5'- cAUCG-GcCCGGUGgcgcCGGCAugGCGCu -3'
miRNA:   3'- -UAGCuCcGGCCAUa---GCUGUugCGCGu -5'
26683 3' -56.1 NC_005808.1 + 30505 0.66 0.578861
Target:  5'- cGUCGAGGuuGagcaCGAgGugGCGCAg -3'
miRNA:   3'- -UAGCUCCggCcauaGCUgUugCGCGU- -5'
26683 3' -56.1 NC_005808.1 + 17145 0.66 0.600007
Target:  5'- -gCGAGGCCgcuuuGGUacuucacGUCGuCGAUGCGCc -3'
miRNA:   3'- uaGCUCCGG-----CCA-------UAGCuGUUGCGCGu -5'
26683 3' -56.1 NC_005808.1 + 34316 0.66 0.55678
Target:  5'- -cCGcGGCCug-GUCGAUAGCGUGCGu -3'
miRNA:   3'- uaGCuCCGGccaUAGCUGUUGCGCGU- -5'
26683 3' -56.1 NC_005808.1 + 14767 0.66 0.578861
Target:  5'- -gCGcGGCCGGcgccaccgCgGGCAGCGCGCGc -3'
miRNA:   3'- uaGCuCCGGCCaua-----G-CUGUUGCGCGU- -5'
26683 3' -56.1 NC_005808.1 + 15255 0.66 0.555682
Target:  5'- -gCGAGGUCGGcc-CGgccuacguggaaaGCAACGCGCGc -3'
miRNA:   3'- uaGCUCCGGCCauaGC-------------UGUUGCGCGU- -5'
26683 3' -56.1 NC_005808.1 + 29267 0.66 0.567794
Target:  5'- ----cGGCCGGUGUCGGgGugGaCGUg -3'
miRNA:   3'- uagcuCCGGCCAUAGCUgUugC-GCGu -5'
26683 3' -56.1 NC_005808.1 + 19764 0.67 0.502797
Target:  5'- -gCGcuGUCGGcUGUCGGCAGCGCgGCGa -3'
miRNA:   3'- uaGCucCGGCC-AUAGCUGUUGCG-CGU- -5'
26683 3' -56.1 NC_005808.1 + 9163 0.67 0.513426
Target:  5'- cUUGAgGGCCGGcagCGACAACuugGCGCc -3'
miRNA:   3'- uAGCU-CCGGCCauaGCUGUUG---CGCGu -5'
26683 3' -56.1 NC_005808.1 + 24572 0.67 0.513426
Target:  5'- -gCGAGGCCGGccacgGUCGGgccgucCGGCGUGUc -3'
miRNA:   3'- uaGCUCCGGCCa----UAGCU------GUUGCGCGu -5'
26683 3' -56.1 NC_005808.1 + 13160 0.67 0.492266
Target:  5'- cUCGAugucGGCCaGUGUCGGC--CGCGCu -3'
miRNA:   3'- uAGCU----CCGGcCAUAGCUGuuGCGCGu -5'
26683 3' -56.1 NC_005808.1 + 16900 0.67 0.524145
Target:  5'- -gCGGGGCUGGUAUgaGCAGCGuUGCc -3'
miRNA:   3'- uaGCUCCGGCCAUAgcUGUUGC-GCGu -5'
26683 3' -56.1 NC_005808.1 + 10482 0.67 0.502797
Target:  5'- cGUCGAGGUCGGcagCGGcCAGgGCGUu -3'
miRNA:   3'- -UAGCUCCGGCCauaGCU-GUUgCGCGu -5'
26683 3' -56.1 NC_005808.1 + 7826 0.67 0.492266
Target:  5'- gGUCGAGGCgCGGcugcaCGAUGACcagGCGCAc -3'
miRNA:   3'- -UAGCUCCG-GCCaua--GCUGUUG---CGCGU- -5'
26683 3' -56.1 NC_005808.1 + 17704 0.68 0.441254
Target:  5'- cUCG-GGCCGGgaaaugcccaUcgCGGCAagcuGCGCGCAu -3'
miRNA:   3'- uAGCuCCGGCC----------AuaGCUGU----UGCGCGU- -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.