Origin IGS: ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaatatttcgaccaaacgaacgtgtgtgctttacataaccttttcggtcctcgcagtcattttaccgcaaagtttgcaaagagcgcaaaagaacaaattacggaaag Mask Tandem Repeat Region ================================================ ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Find is-nt database================================================ Query_seq: TF3145:TF3146|TF3145:TF3146:conserved hypothetical protein; possible GTP cyclohydrolase I family:GTP-binding protein Obg:->->:3381883..3381991 109 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF3145:TF3146|TF3145:TF3146:conserved hypothetical protein; possible GTP cyclohydrolase I family:GTP-binding protein Obg:->->:3381883..3381991 109 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF3145:TF3146|TF3145:TF3146:conserved hypothetical protein; possible GTP cyclohydrolase I family:GTP-binding protein Obg:->->:3381883..3381991 109 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 2 End: 103 . K R L K N K Q A R Q L S Q P L I V A L V S F T I Y L V C T R K T S M ...... ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca 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================================================ ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF3145:TF3146|TF3145:TF3146:conserved hypothetical protein; possible GTP cyclohydrolase I family:GTP-binding protein Obg:->->:3381883..3381991 109 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: tfor_TF3145_TF3146|conserved hypothetical protein; possible GTP cyclohydrolase I family:GTP-binding protein Obg|POSITIVE:POSITIVE|[3381883,3381991]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca ctttccgtaatttgttcttttgcgctctttgcaaactttgcggtaaaatgactgcgaggaccgaaaaggttatgtaaagcacacacgttcgtttggtcgaaatatttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUCCGUAAUUUGUUCUUUUGCGCUCUUUGCAAACUUUGCGGUAAAAUGACUGCGAGGACCGAAAAGGUUAUGUAAAGCACACACGUUCGUUUGGUCGAAAUAUUUCA ((((.((((((((.(((..(((((.....))))).(((((((((......)))))))))...))).)))))))).))))........((((......))))........ (-25.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUAUUUCGACCAAACGAACGUGUGUGCUUUACAUAACCUUUUCGGUCCUCGCAGUCAUUUUACCGCAAAGUUUGCAAAGAGCGCAAAAGAACAAAUUACGGAAAG .......(((((.....((....)).((((((((...(((.((((.((((...............)))).)))).)))...)))))))).............))))).. (-17.66) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 434 69 21 71 18 tfor:TF1592|5end_hypothetical_protein_1708325..1708555_POSITIVE 434 69 21 71 18 tfor:TF1590|5end_hypothetical_protein_1705811..1706041_POSITIVE 387 59 13 218 156 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 387 59 13 93 31 tfor:TF2776|5end_hypothetical_protein_2961470..2961700_POSITIVE 352 59 11 203 146 tfor:TF0480|5end_ornithine_carbamoyltransferase_498550..498780_POSITIVE 345 100 52 181 129 tfor:TF1253|5end_hypothetical_protein_1335982..1336212_POSITIVE 332 65 21 160 114 tfor:TF0568|5end_indolepyruvate_ferredoxin_oxidoreductase,_alpha_subunit_600129..600359_POSITIVE 330 58 17 52 5 tfor:TF1259|5end_hypothetical_protein_1338549..1338779_POSITIVE 328 69 23 222 179 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 326 70 24 191 138 tfor:TF2352|5end_phosphotransacetylase_2516688..2516918_POSITIVE 325 69 23 218 177 tfor:TF0023|5end_possible_response_element_in_two_component_regulation_19446..19676_POSITIVE 324 100 51 66 24 tfor:TF1797|5end_SNF_family_transporter_1937136..1937366_POSITIVE 322 100 52 54 5 tfor:TF2008|5end_DNA_polymerase_I_2159302..2159532_POSITIVE 319 70 24 67 22 tfor:TF0081|5end_pantothenate_kinase_87464..87694_POSITIVE 318 60 12 51 3 tfor:TF2974|5end_conserved_hypothetical_protein;_possible_hydrolase_3181418..3181648_POSITIVE 313 70 28 144 100 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 309 59 12 192 143 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 306 59 11 53 2 tfor:TF2265|5end_transfer_region-related_protein,_TraP;_DNA_primase_involved_in_conjugation_2433474..2433704_POSITIVE 304 99 53 216 170 tfor:TF2943|5end_50S_ribosomal_protein_L7/L12_3143116..3143346_POSITIVE 303 44 1 166 120 tfor:TF1714|5end_hypothetical_protein_1834125..1834355_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 65 21 85 39 tfor:TF0567|3end_conserved_hypothetical_protein;_possible_periplasmic_solute-binding_protein_600134..600284_POSITIVE 324 100 51 66 24 tfor:TF1796|3end_ABC_transporter,_ATP-binding_protein_1937216..1937366_POSITIVE 298 70 21 93 48 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 288 76 31 67 14 tfor:TF1178|3end_sigma-54_dependent_DNA-binding_response_regulator_1266128..1266278_POSITIVE 283 32 2 44 6 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE 281 99 53 130 57 tfor:TF1179|3end_two-component_sensor_histidine_kinase_1267447..1267597_POSITIVE 277 93 55 55 11 tfor:TF2795|3end_hypothetical_protein_2980909..2981059_POSITIVE 275 58 13 148 103 tfor:TF2169|3end_hypothetical_protein_2345354..2345504_POSITIVE 273 58 11 148 114 tfor:TF2202|3end_hypothetical_protein_2379004..2379154_POSITIVE 272 60 14 124 79 tfor:TF1271|3end_hypothetical_protein_1355462..1355612_POSITIVE 268 44 1 151 116 tfor:TF2682|3end_N_utilization_substance_protein_A_2857770..2857920_POSITIVE 268 69 26 63 18 tfor:TF2369|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_2536103..2536253_POSITIVE 267 99 53 54 3 tfor:TF1728|3end_cell_division_ABC_transporter,_ATP-binding_protein_FtsE_1853345..1853495_POSITIVE 263 60 11 101 59 tfor:TF2224|3end_CTn_excision_protein_2394968..2395118_POSITIVE 263 68 21 40 3 tfor:TF2176|3end_hypothetical_protein_2349185..2349335_POSITIVE 263 70 21 137 92 tfor:TF1184|3end_hypothetical_protein_1269311..1269461_POSITIVE 263 70 21 137 92 tfor:TF1183|3end_hypothetical_protein_1268728..1268878_POSITIVE 262 59 11 73 1 tfor:TF2609|3end_dipeptidase,_pathogenicity_island-encoded_protein_D_2786264..2786414_POSITIVE 262 70 21 137 92 tfor:TF1844|3end_hypothetical_protein_1996693..1996843_POSITIVE 262 70 21 111 66 tfor:TF1659|3end_hypothetical_protein_1775209..1775359_POSITIVE