miRNA display CGI


Results 1 - 20 of 61 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
16997 3' -53.5 NC_004333.2 + 8304 0.66 0.789655
Target:  5'- -aGGCGgcGCGCg---GGGCUCGCGc -3'
miRNA:   3'- ggCCGCauUGCGacugCUUGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 30972 0.66 0.788652
Target:  5'- gCGGCaGUGAuCGCccgcGACGAuaaacagaucgggGCUCGCAGc -3'
miRNA:   3'- gGCCG-CAUU-GCGa---CUGCU-------------UGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 11711 0.66 0.77955
Target:  5'- gCCgGGCGgcGUGCUGGCGucCUgCGCGAu -3'
miRNA:   3'- -GG-CCGCauUGCGACUGCuuGA-GCGUU- -5'
16997 3' -53.5 NC_004333.2 + 33063 0.66 0.77955
Target:  5'- gUCGGCcacgAGCGCUGGC-AACUCGg-- -3'
miRNA:   3'- -GGCCGca--UUGCGACUGcUUGAGCguu -5'
16997 3' -53.5 NC_004333.2 + 11008 0.66 0.769287
Target:  5'- gCGGCGUGucgccGCGCUG-CGGgauGC-CGCAc -3'
miRNA:   3'- gGCCGCAU-----UGCGACuGCU---UGaGCGUu -5'
16997 3' -53.5 NC_004333.2 + 45542 0.66 0.769287
Target:  5'- gCCGGCa-AGCGC-GAUGAACcgCGCGGu -3'
miRNA:   3'- -GGCCGcaUUGCGaCUGCUUGa-GCGUU- -5'
16997 3' -53.5 NC_004333.2 + 8647 0.66 0.769287
Target:  5'- cUCGGCGcGGCGCccGGCuuGCUCGUGAc -3'
miRNA:   3'- -GGCCGCaUUGCGa-CUGcuUGAGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 32887 0.66 0.758875
Target:  5'- cCCGGUGcUGAUGCUGACcgcgccGC-CGCAGc -3'
miRNA:   3'- -GGCCGC-AUUGCGACUGcu----UGaGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 32534 0.66 0.758875
Target:  5'- gCCGaCGUcGCGC-GGCGcGCUCGCGu -3'
miRNA:   3'- -GGCcGCAuUGCGaCUGCuUGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 19273 0.66 0.758875
Target:  5'- uCCGGCGaccUggUGCUGcucGCGAGCaaGCAc -3'
miRNA:   3'- -GGCCGC---AuuGCGAC---UGCUUGagCGUu -5'
16997 3' -53.5 NC_004333.2 + 12291 0.66 0.748329
Target:  5'- aCCGGCGgcGCGCauugcGGCGucCUgCGCGc -3'
miRNA:   3'- -GGCCGCauUGCGa----CUGCuuGA-GCGUu -5'
16997 3' -53.5 NC_004333.2 + 42847 0.66 0.748329
Target:  5'- gCGGCGUGACGauccagcGCGAAggCGCGAa -3'
miRNA:   3'- gGCCGCAUUGCgac----UGCUUgaGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 22875 0.67 0.737659
Target:  5'- aUCGGCGcgaucguacUGGCGCucgUGACGAGCagaagCGCGGu -3'
miRNA:   3'- -GGCCGC---------AUUGCG---ACUGCUUGa----GCGUU- -5'
16997 3' -53.5 NC_004333.2 + 21526 0.67 0.726879
Target:  5'- gCCGGCGcgaucACGCUcACGAGCggcggUGCGAc -3'
miRNA:   3'- -GGCCGCau---UGCGAcUGCUUGa----GCGUU- -5'
16997 3' -53.5 NC_004333.2 + 24790 0.67 0.726879
Target:  5'- aCGGCGUGAcCGCccuguccggacUGACGGGCg-GCAc -3'
miRNA:   3'- gGCCGCAUU-GCG-----------ACUGCUUGagCGUu -5'
16997 3' -53.5 NC_004333.2 + 37325 0.67 0.726879
Target:  5'- gCGGCGUcaAGCGCgUGACagcguACUUGCGg -3'
miRNA:   3'- gGCCGCA--UUGCG-ACUGcu---UGAGCGUu -5'
16997 3' -53.5 NC_004333.2 + 16660 0.67 0.716
Target:  5'- aCUGGuCGUGACGCU--CGAACUagacgCGCGAc -3'
miRNA:   3'- -GGCC-GCAUUGCGAcuGCUUGA-----GCGUU- -5'
16997 3' -53.5 NC_004333.2 + 19537 0.67 0.716
Target:  5'- uCCGGCGacuugGGCGCUcaucaGCGAGCUgGUAc -3'
miRNA:   3'- -GGCCGCa----UUGCGAc----UGCUUGAgCGUu -5'
16997 3' -53.5 NC_004333.2 + 1020 0.67 0.716
Target:  5'- uCCGGCGUcaGAUGCgcaucgggGACGAA--CGCGAu -3'
miRNA:   3'- -GGCCGCA--UUGCGa-------CUGCUUgaGCGUU- -5'
16997 3' -53.5 NC_004333.2 + 45250 0.67 0.716
Target:  5'- uCCGGCaucgaAGCGCgcgUGGCGccuuGGCUCGCGAa -3'
miRNA:   3'- -GGCCGca---UUGCG---ACUGC----UUGAGCGUU- -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.