Origin IGS: tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaatcatagaaaagattaaattcttttaatttctttggctgttaggctccaatattctaaatttgcattgtatgaagaagatatttatcatagccatagcactgcttcttggtataaga Mask Tandem Repeat Region ================================================ tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Find is-nt database================================================ Query_seq: PI1392:PI1393|PI1392:PI1393:hypothetical protein:aldose 1-epimerase:->->:1312809..1312929 121 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1392:PI1393|PI1392:PI1393:hypothetical protein:aldose 1-epimerase:->->:1312809..1312929 121 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1392:PI1393|PI1392:PI1393:hypothetical protein:aldose 1-epimerase:->->:1312809..1312929 121 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 2 End: 100 . K Y W S A T S H S H Y I D E E Y L A F K S Y Q L R V A L S I L L M ..................... tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1392:PI1393|PI1392:PI1393:hypothetical protein:aldose 1-epimerase:->->:1312809..1312929 121 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: pint_PI1392_PI1393|hypothetical protein:aldose 1-epimerase|POSITIVE:POSITIVE|[1312809,1312929]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta tcttataccaagaagcagtgctatggctatgataaatatcttcttcatacaatgcaaatttagaatattggagcctaacagccaaagaaattaaaagaatttaatcttttctatgatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUAUACCAAGAAGCAGUGCUAUGGCUAUGAUAAAUAUCUUCUUCAUACAAUGCAAAUUUAGAAUAUUGGAGCCUAACAGCCAAAGAAAUUAAAAGAAUUUAAUCUUUUCUAUGAUUUUA ((((.....)))).(((.((.(((((....(((....)))....))))))).)))............((((..........)))).((((((((((((......)))))....))))))). (-13.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUCAUAGAAAAGAUUAAAUUCUUUUAAUUUCUUUGGCUGUUAGGCUCCAAUAUUCUAAAUUUGCAUUGUAUGAAGAAGAUAUUUAUCAUAGCCAUAGCACUGCUUCUUGGUAUAAGA ........(((((.((((((((....))))))))....((((....))))......)))))........((((((.((((((....((((.......)))).....)))))).)))))).. (-18.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 55 11 104 52 pint:PI0606|5end_naphthoate_synthase_552956..553186_POSITIVE 238 75 40 111 76 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 228 50 8 80 37 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 221 59 11 68 32 pint:PI0714|5end_conserved_hypothetical_protein_651345..651575_POSITIVE 220 45 1 44 7 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 219 88 48 229 195 pint:PI0490|5end_DNA_primase_449070..449300_POSITIVE 217 49 10 92 56 pint:PI1810|5end_outer_membrane_protein_1748305..1748535_POSITIVE 217 38 3 195 161 pint:PI0522|5end_50S_ribosomal_protein_L19_479004..479234_POSITIVE 217 38 3 77 43 pint:PI0521|5end_hypothetical_protein_478886..479116_POSITIVE 217 54 11 95 37 pint:PI0079|5end_hypothetical_protein_78565..78795_POSITIVE 214 84 47 113 81 pint:PI1878|5end_hypothetical_protein_1819989..1820219_POSITIVE 214 84 47 34 2 pint:PI1877|5end_hypothetical_protein_1819910..1820140_POSITIVE 212 82 51 206 170 pint:PI2138|5end_nicotinate_phosphoribosyltransferase_2083836..2084066_POSITIVE 211 50 2 93 27 pint:PI1101|5end_hypothetical_protein_1024597..1024827_POSITIVE 211 40 8 55 22 pint:PI1026|5end_uridine_phosphorylase_942300..942530_POSITIVE 209 45 8 185 148 pint:PI1747|5end_membrane-bound_lytic_murein_transglycosylase_D_1667483..1667713_POSITIVE 209 45 8 58 21 pint:PI1746|5end_hypothetical_protein_1667356..1667586_POSITIVE 209 42 1 164 123 pint:PI1122|5end_pyridoxal-phosphate-dependent_aminotransferase_1046636..1046866_POSITIVE 209 49 5 44 7 pint:PI0674|5end_conserved_hypothetical_protein_613711..613941_POSITIVE 207 50 5 93 48 pint:PI1315|5end_conserved_hypothetical_protein_1231776..1232006_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 55 11 94 42 pint:PI0605|3end_chloromuconate_cycloisomerase_553026..553176_POSITIVE 232 50 2 82 38 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 217 38 3 62 28 pint:PI0520|3end_hypothetical_protein_478951..479101_POSITIVE 215 45 11 76 31 pint:PI1903|3end_hypothetical_protein_1845569..1845719_POSITIVE 213 78 37 50 3 pint:PI1032|3end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_950162..950312_POSITIVE 212 82 51 97 61 pint:PI2137|3end_RNA_methylase_SpoU_family_2083807..2083957_POSITIVE 209 41 3 151 114 pint:PI1789|3end_hypothetical_protein_1719037..1719187_POSITIVE 209 45 8 39 2 pint:PI1745|3end_conserved_hypothetical_protein_1667417..1667567_POSITIVE 206 89 41 65 9 pint:PI1489|3end_exodeoxyribonuclease_III_1408587..1408737_POSITIVE 201 56 12 121 83 pint:PI1947|3end_hypothetical_protein_1902865..1903015_POSITIVE 201 28 8 53 25 pint:PI1353|3end_conserved_hypothetical_protein_1270932..1271082_POSITIVE 199 28 4 96 72 pint:PI1798|3end__elongation_factor_Ts_1732824..1732974_POSITIVE 197 83 50 118 89 pint:PI2018|3end_50S_ribosomal_protein_L34_1975989..1976139_POSITIVE 197 50 8 67 20 pint:PI2004|3end_1-deoxy-D-xylulose_5-phosphate_synthase_1963004..1963154_POSITIVE 197 55 17 118 82 pint:PI0439|3end_conserved_hypothetical_protein;_possible_preprotein_translocase_subunit_SecE_410644..410794_POSITIVE 196 47 8 131 82 pint:PI0788|3end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726789..726939_POSITIVE 192 48 6 44 1 pint:PI0763|3end_thymidine_kinase_698002..698152_POSITIVE 191 27 8 137 122 pint:PI2086|3end_signal_peptidase_I_2043450..2043600_POSITIVE 190 34 6 87 58 pint:PI1339|3end_hypothetical_protein_1257164..1257314_POSITIVE 189 46 8 66 20 pint:PI1486|3end_alginate_O-acetylation_protein_1407062..1407212_POSITIVE