miRNA display CGI


Results 1 - 20 of 70 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
24396 3' -55.6 NC_005264.1 + 122094 0.66 0.935856
Target:  5'- cGCUGucucGCCGCGaCUGgcgGCGGcCGAGGaCCc -3'
miRNA:   3'- -UGAC----UGGCGC-GACa--UGCU-GCUUC-GGu -5'
24396 3' -55.6 NC_005264.1 + 4899 0.66 0.935856
Target:  5'- --gGACCGCGgaGgcgaGCGACGAAGa-- -3'
miRNA:   3'- ugaCUGGCGCgaCa---UGCUGCUUCggu -5'
24396 3' -55.6 NC_005264.1 + 56811 0.66 0.935856
Target:  5'- uUUGucCUGCGCUGcGCGGCGGcccuAGCUAg -3'
miRNA:   3'- uGACu-GGCGCGACaUGCUGCU----UCGGU- -5'
24396 3' -55.6 NC_005264.1 + 3067 0.66 0.935856
Target:  5'- cGCUGucucGCCGCGaCUGgcgGCGGcCGAGGaCCc -3'
miRNA:   3'- -UGAC----UGGCGC-GACa--UGCU-GCUUC-GGu -5'
24396 3' -55.6 NC_005264.1 + 3198 0.66 0.935856
Target:  5'- cCUGGCCGCGUuccUGUcuuCG-CGuAGCCAc -3'
miRNA:   3'- uGACUGGCGCG---ACAu--GCuGCuUCGGU- -5'
24396 3' -55.6 NC_005264.1 + 123925 0.66 0.935856
Target:  5'- --gGACCGCGgaGgcgaGCGACGAAGa-- -3'
miRNA:   3'- ugaCUGGCGCgaCa---UGCUGCUUCggu -5'
24396 3' -55.6 NC_005264.1 + 93860 0.66 0.935856
Target:  5'- cACUGGCC-CGCUaaGCuGGCG-AGCCAg -3'
miRNA:   3'- -UGACUGGcGCGAcaUG-CUGCuUCGGU- -5'
24396 3' -55.6 NC_005264.1 + 129511 0.66 0.930835
Target:  5'- uUUGGCgGCGCcGgagGCGACGGAaCCAc -3'
miRNA:   3'- uGACUGgCGCGaCa--UGCUGCUUcGGU- -5'
24396 3' -55.6 NC_005264.1 + 53282 0.66 0.925576
Target:  5'- cCUGGCCGCGCgg-GCuuCGggGgCAa -3'
miRNA:   3'- uGACUGGCGCGacaUGcuGCuuCgGU- -5'
24396 3' -55.6 NC_005264.1 + 122990 0.66 0.920078
Target:  5'- cCUGGCCGCGCcGgcCGGCuuuaccGCCAa -3'
miRNA:   3'- uGACUGGCGCGaCauGCUGcuu---CGGU- -5'
24396 3' -55.6 NC_005264.1 + 62592 0.66 0.920078
Target:  5'- aAUUGACCGCGCgaaGUaGCGGCGcggacguuccGAGCa- -3'
miRNA:   3'- -UGACUGGCGCGa--CA-UGCUGC----------UUCGgu -5'
24396 3' -55.6 NC_005264.1 + 3964 0.66 0.920078
Target:  5'- cCUGGCCGCGCcGgcCGGCuuuaccGCCAg -3'
miRNA:   3'- uGACUGGCGCGaCauGCUGcuu---CGGU- -5'
24396 3' -55.6 NC_005264.1 + 120540 0.66 0.919515
Target:  5'- cGCUGGCUGCGCcGUuuuuuggggccccGCGGCGuugaccgcGCCGg -3'
miRNA:   3'- -UGACUGGCGCGaCA-------------UGCUGCuu------CGGU- -5'
24396 3' -55.6 NC_005264.1 + 1513 0.66 0.919515
Target:  5'- cGCUGGCUGCGCcGUuuuuuggggccccGCGGCGuugaccgcGCCGg -3'
miRNA:   3'- -UGACUGGCGCGaCA-------------UGCUGCuu------CGGU- -5'
24396 3' -55.6 NC_005264.1 + 79782 0.66 0.914341
Target:  5'- -gUGACCGUacuauugacauuGCUaGUGCGcaACGAGGCCc -3'
miRNA:   3'- ugACUGGCG------------CGA-CAUGC--UGCUUCGGu -5'
24396 3' -55.6 NC_005264.1 + 156752 0.66 0.908367
Target:  5'- uCUG-CCGcCGCU--ACGACGcGAGCCAa -3'
miRNA:   3'- uGACuGGC-GCGAcaUGCUGC-UUCGGU- -5'
24396 3' -55.6 NC_005264.1 + 157777 0.66 0.908367
Target:  5'- gGCUGGCCGC-CU-UGCGACcccuGCCAg -3'
miRNA:   3'- -UGACUGGCGcGAcAUGCUGcuu-CGGU- -5'
24396 3' -55.6 NC_005264.1 + 37726 0.66 0.908367
Target:  5'- uCUG-CCGcCGCU--ACGACGcGAGCCAa -3'
miRNA:   3'- uGACuGGC-GCGAcaUGCUGC-UUCGGU- -5'
24396 3' -55.6 NC_005264.1 + 38751 0.66 0.908367
Target:  5'- gGCUGGCCGC-CU-UGCGACcccuGCCAg -3'
miRNA:   3'- -UGACUGGCGcGAcAUGCUGcuu-CGGU- -5'
24396 3' -55.6 NC_005264.1 + 162395 0.67 0.902157
Target:  5'- --cGACCGCGCauagGUACGA-GAcGCUAg -3'
miRNA:   3'- ugaCUGGCGCGa---CAUGCUgCUuCGGU- -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.