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
23954 3' -52.6 NC_005262.1 + 14383 0.66 0.902558
Target:  5'- gCGGUCGccCAUGCCG-CCgaacagaccaGUUGCGACg -3'
miRNA:   3'- -GCUAGCa-GUACGGCaGG----------UAGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 63508 0.66 0.902558
Target:  5'- uGAUCuUCGUgGCCGUCuCAgcaGCGGCa -3'
miRNA:   3'- gCUAGcAGUA-CGGCAG-GUag-UGCUGa -5'
23954 3' -52.6 NC_005262.1 + 31266 0.66 0.902558
Target:  5'- uCGAUCGgcagccgCA-GUCGUCCGcggccaagaUCGCGGCg -3'
miRNA:   3'- -GCUAGCa------GUaCGGCAGGU---------AGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 52797 0.66 0.888449
Target:  5'- uCGcUCGUCA-GCCGUgCGagCGCGACc -3'
miRNA:   3'- -GCuAGCAGUaCGGCAgGUa-GUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 34755 0.66 0.888449
Target:  5'- uGcgCGUCGUGCCGgcgCCGcUCGagcuCGGCg -3'
miRNA:   3'- gCuaGCAGUACGGCa--GGU-AGU----GCUGa -5'
23954 3' -52.6 NC_005262.1 + 50828 0.66 0.881756
Target:  5'- gCGGUCGUCGacGCCGagccggucggcgaugCCGUCGCGcACg -3'
miRNA:   3'- -GCUAGCAGUa-CGGCa--------------GGUAGUGC-UGa -5'
23954 3' -52.6 NC_005262.1 + 28134 0.66 0.881
Target:  5'- uCGA-CGUCAUGCuCG-CCAUCuuccccgagcgcGCGGCg -3'
miRNA:   3'- -GCUaGCAGUACG-GCaGGUAG------------UGCUGa -5'
23954 3' -52.6 NC_005262.1 + 15712 0.66 0.881
Target:  5'- uCGcgCGUCGgcGCCGggcggCuCGUCGCGGCa -3'
miRNA:   3'- -GCuaGCAGUa-CGGCa----G-GUAGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 29750 0.66 0.881
Target:  5'- uGGUCGUCGagcaacUGCCGaUCGaCGCGGCg -3'
miRNA:   3'- gCUAGCAGU------ACGGCaGGUaGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 17068 0.66 0.876407
Target:  5'- uCGAUCcgGUCGUGCCGgauugcgccggcuugUCCAcugcgcgCGCGGCg -3'
miRNA:   3'- -GCUAG--CAGUACGGC---------------AGGUa------GUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 17930 0.67 0.86534
Target:  5'- aCGAgCGUgAUGCCGUCCGccuUCAucugcucgugauCGGCa -3'
miRNA:   3'- -GCUaGCAgUACGGCAGGU---AGU------------GCUGa -5'
23954 3' -52.6 NC_005262.1 + 39478 0.67 0.857143
Target:  5'- uCGAUCGc---GCCGaCCAUCGCGAg- -3'
miRNA:   3'- -GCUAGCaguaCGGCaGGUAGUGCUga -5'
23954 3' -52.6 NC_005262.1 + 25734 0.67 0.857143
Target:  5'- aGAUCGcgccagcggcCGUGCCGUUCGUCGUGAUg -3'
miRNA:   3'- gCUAGCa---------GUACGGCAGGUAGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 27705 0.67 0.857143
Target:  5'- aGAUCagGUCAaaggcaauugUGCCGUCCGgguagUGCGGCa -3'
miRNA:   3'- gCUAG--CAGU----------ACGGCAGGUa----GUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 52565 0.67 0.84871
Target:  5'- gCGAUCGUC--GCUGUCgAgcucggCGCGGCUc -3'
miRNA:   3'- -GCUAGCAGuaCGGCAGgUa-----GUGCUGA- -5'
23954 3' -52.6 NC_005262.1 + 36674 0.67 0.840051
Target:  5'- gGAUCGUC--GUCGUCCAgcuCGGCg -3'
miRNA:   3'- gCUAGCAGuaCGGCAGGUaguGCUGa -5'
23954 3' -52.6 NC_005262.1 + 6654 0.68 0.822085
Target:  5'- uCGAUCG-CGUcGCCGUCCucgaucCACGAg- -3'
miRNA:   3'- -GCUAGCaGUA-CGGCAGGua----GUGCUga -5'
23954 3' -52.6 NC_005262.1 + 25739 0.68 0.822085
Target:  5'- gCGAUCGcgCAgGCCGgcaagCCGcUCACGGCc -3'
miRNA:   3'- -GCUAGCa-GUaCGGCa----GGU-AGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 60101 0.68 0.822085
Target:  5'- aGAUUGUCGgcGCCGgcaucaccgUCGUCACGGCc -3'
miRNA:   3'- gCUAGCAGUa-CGGCa--------GGUAGUGCUGa -5'
23954 3' -52.6 NC_005262.1 + 39580 0.68 0.822085
Target:  5'- -aAUCGgCGUGCCGgcgcagCGUCGCGGCUg -3'
miRNA:   3'- gcUAGCaGUACGGCag----GUAGUGCUGA- -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.