miRNA display CGI


Results 1 - 20 of 39 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
1897 3' -62.2 NC_001347.2 + 114453 0.66 0.754606
Target:  5'- -gCGCCUgugucaCCCGCgcuugagCGGCggacUGCUGACGc -3'
miRNA:   3'- ugGCGGA------GGGCGa------GCCGa---ACGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 107418 0.66 0.745566
Target:  5'- uACCGCCa--CGCUcCGGCgcgGCgGACGa -3'
miRNA:   3'- -UGGCGGaggGCGA-GCCGaa-CGgCUGU- -5'
1897 3' -62.2 NC_001347.2 + 135214 0.66 0.745566
Target:  5'- cGCCGaCC-CCgGCUgGGCg-GCCGAUg -3'
miRNA:   3'- -UGGC-GGaGGgCGAgCCGaaCGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 217096 0.66 0.745566
Target:  5'- cCCGCCUCgCaCGCUcaguaCGGCUuucgacuacUGCgCGGCAu -3'
miRNA:   3'- uGGCGGAG-G-GCGA-----GCCGA---------ACG-GCUGU- -5'
1897 3' -62.2 NC_001347.2 + 85350 0.66 0.745566
Target:  5'- cGCCGUCgCCCGC--GGCUagGCCGAg- -3'
miRNA:   3'- -UGGCGGaGGGCGagCCGAa-CGGCUgu -5'
1897 3' -62.2 NC_001347.2 + 113615 0.66 0.743747
Target:  5'- cGCgGCCUCCacgucgucgcagCGC-CGGCUggagagcgagagGCCGGCGu -3'
miRNA:   3'- -UGgCGGAGG------------GCGaGCCGAa-----------CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 1660 0.66 0.736438
Target:  5'- uGCUGCCUCa-GC-CGGCgcuCCGACAg -3'
miRNA:   3'- -UGGCGGAGggCGaGCCGaacGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 16586 0.66 0.736438
Target:  5'- uGCCGCUgguaCCUGCUgGGU--GCCGugGg -3'
miRNA:   3'- -UGGCGGa---GGGCGAgCCGaaCGGCugU- -5'
1897 3' -62.2 NC_001347.2 + 66582 0.66 0.727231
Target:  5'- --gGCC-CUCGCcggCGGCcgUUGCCGGCAa -3'
miRNA:   3'- uggCGGaGGGCGa--GCCG--AACGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 38362 0.66 0.727231
Target:  5'- -aCGgCUCCCGCUaucgcgcaCGGCgcguccccGCCGGCGg -3'
miRNA:   3'- ugGCgGAGGGCGA--------GCCGaa------CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 196263 0.66 0.717951
Target:  5'- cGCgGCCUUuuGCgagugCGGCgacggGCgCGACAa -3'
miRNA:   3'- -UGgCGGAGggCGa----GCCGaa---CG-GCUGU- -5'
1897 3' -62.2 NC_001347.2 + 38008 0.66 0.717951
Target:  5'- aGCCGCCgCgCGgcCUCGGCggcgggcGCCGACu -3'
miRNA:   3'- -UGGCGGaGgGC--GAGCCGaa-----CGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 92245 0.66 0.717951
Target:  5'- cCCGCCUgCCCGCa-GGCcgugGCCGcCGc -3'
miRNA:   3'- uGGCGGA-GGGCGagCCGaa--CGGCuGU- -5'
1897 3' -62.2 NC_001347.2 + 82894 0.66 0.717951
Target:  5'- cAUCGCCUCCCGagCGaGCggGCCGcCGc -3'
miRNA:   3'- -UGGCGGAGGGCgaGC-CGaaCGGCuGU- -5'
1897 3' -62.2 NC_001347.2 + 158127 0.66 0.717951
Target:  5'- cAUCGaCCUgCCGCUCuGGUgucugUGUCGACu -3'
miRNA:   3'- -UGGC-GGAgGGCGAG-CCGa----ACGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 16716 0.66 0.70767
Target:  5'- cGCCGCC-CCUGCagcgucuagccggUgaaaucuacCGGCUgGCCGACAg -3'
miRNA:   3'- -UGGCGGaGGGCG-------------A---------GCCGAaCGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 18001 0.66 0.705793
Target:  5'- gGCCGCCaUCCCGCagauuuacgcacguUCucuGGCc-GCCGACu -3'
miRNA:   3'- -UGGCGG-AGGGCG--------------AG---CCGaaCGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 38445 0.67 0.699206
Target:  5'- cGCCGCCgucCCCGUcgcCGGCcccGCCGcGCAg -3'
miRNA:   3'- -UGGCGGa--GGGCGa--GCCGaa-CGGC-UGU- -5'
1897 3' -62.2 NC_001347.2 + 1276 0.67 0.689756
Target:  5'- cGCUGCUg-CCGCUCGGacgGCCGuACGg -3'
miRNA:   3'- -UGGCGGagGGCGAGCCgaaCGGC-UGU- -5'
1897 3' -62.2 NC_001347.2 + 47774 0.67 0.680263
Target:  5'- aGCCGCCgugccUCCGgUUGGUg-GCCGGCGg -3'
miRNA:   3'- -UGGCGGa----GGGCgAGCCGaaCGGCUGU- -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.