Origin IGS: agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagaaaaataggatgaaaagaacaagaaacagggtacgtgccataataatggcaataagcccaattttcctggttacgcaggaggaaattgatgaacaaatgaaaacacggcaact Mask Tandem Repeat Region ================================================ agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Find is-nt database================================================ Query_seq: TF1894:TF1895|TF1894:TF1895:hypothetical protein:hypothetical protein:->->:2047374..2047490 117 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1894:TF1895|TF1894:TF1895:hypothetical protein:hypothetical protein:->->:2047374..2047490 117 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1894:TF1895|TF1894:TF1895:hypothetical protein:hypothetical protein:->->:2047374..2047490 117 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 3 End: 116 .. M P C F H L F I N F L L R N Q E N W A Y C H Y Y G T Y P V S C S F H P I F L . Protein_Len: 34 Strand: + Start: 16 End: 117 ............... M C S S I S S C V T R K I G L I A I I M A R T L F L V L F I L F F L Protein_Len: 34 Strand: - Start: 3 End: 104 .. Q R T K M Q E D I E E Q T V L F I P S I A M I I A R V R N R T R K M ............. agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta 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================================================ agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1894:TF1895|TF1894:TF1895:hypothetical protein:hypothetical protein:->->:2047374..2047490 117 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: tfor_TF1894_TF1895|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2047374,2047490]|117 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta agttgccgtgttttcatttgttcatcaatttcctcctgcgtaaccaggaaaattgggcttattgccattattatggcacgtaccctgtttcttgttcttttcatcctatttttctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUGCCGUGUUUUCAUUUGUUCAUCAAUUUCCUCCUGCGUAACCAGGAAAAUUGGGCUUAUUGCCAUUAUUAUGGCACGUACCCUGUUUCUUGUUCUUUUCAUCCUAUUUUUCUUA .(((((((.(.......(((.....)))......).)).)))))(((((((...(((.....((((((....))))))....)))..)))))))....................... (-21.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAAAAUAGGAUGAAAAGAACAAGAAACAGGGUACGUGCCAUAAUAAUGGCAAUAAGCCCAAUUUUCCUGGUUACGCAGGAGGAAAUUGAUGAACAAAUGAAAACACGGCAACU .......................(((......((((...((((((....))))))....))))..((((((((......))))))))..)))..................(....). (-25.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 80 36 69 33 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 298 77 32 226 174 tfor:TF1651|5end_integrase_1761296..1761526_POSITIVE 295 96 56 66 19 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 295 96 56 59 12 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 289 77 33 229 191 tfor:TF2025|5end_hypothetical_protein_2181933..2182163_POSITIVE 288 50 2 226 179 tfor:TF2241|5end_ATP-dependent_DNA_helicase_2415401..2415631_POSITIVE 285 96 56 185 152 tfor:TF1609|5end_hypothetical_protein_1728340..1728570_POSITIVE 284 96 53 92 39 tfor:TF3027|5end_zinc_metalloprotease_3250223..3250453_POSITIVE 284 49 6 188 146 tfor:TF2286|5end_hypothetical_protein_2440901..2441131_POSITIVE 284 49 6 70 28 tfor:TF2285|5end_hypothetical_protein_2440783..2441013_POSITIVE 283 80 37 80 45 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 282 48 1 210 157 tfor:TF0223|5end_conserved_hypothetical_protein_249622..249852_POSITIVE 279 80 31 114 61 tfor:TF2204|5end_conserved_hypothetical_protein_2378866..2379096_POSITIVE 279 80 35 77 36 tfor:TF0471|5end_conserved_hypothetical_protein_487516..487746_POSITIVE 277 89 43 63 7 tfor:TF2932|5end_capsule_biosynthesis_protein_3135514..3135744_POSITIVE 275 80 33 160 97 tfor:TF2855|5end_ATPase,_AAA_family_3040657..3040887_POSITIVE 275 77 35 67 31 tfor:TF1834|5end_3-isopropylmalate_dehydrogenase_1983161..1983391_POSITIVE 275 60 11 200 139 tfor:TF1808|5end_DNA_processing_protein_subunit_A_1949356..1949586_POSITIVE 273 66 25 71 30 tfor:TF2689|5end_hypothetical_protein_2864824..2865054_POSITIVE 272 78 31 78 30 tfor:TF2184|5end_conserved_hypothetical_protein_2355578..2355808_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 48 5 71 20 tfor:TF1109|3end_lipoprotein_1179997..1180147_POSITIVE 299 80 32 47 11 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 284 49 6 53 11 tfor:TF2284|3end_hypothetical_protein_2440846..2440996_POSITIVE 275 80 33 148 85 tfor:TF2853|3end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040725..3040875_POSITIVE 273 66 25 129 88 tfor:TF2687|3end_iron-regulated_ABC-type_transporter_membrane_component_2864962..2865112_POSITIVE 271 94 53 101 60 tfor:TF1095|3end_transposase_1165199..1165349_POSITIVE 271 76 33 60 18 tfor:TF0093|3end_outer_membrane_protein,_TonB_dependent_receptor_103618..103768_POSITIVE 269 95 53 68 23 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 264 50 5 118 82 tfor:TF0001|3end_hypothetical_protein_158..308_POSITIVE 262 100 53 80 26 tfor:TF2248|3end_transfer_region-related_protein,_TraB_2423068..2423218_POSITIVE 262 36 6 98 60 tfor:TF0776|3end_ABC_transporter,_permease_component_826173..826323_POSITIVE 261 42 4 69 30 tfor:TF1596|3end_hypothetical_protein_1712723..1712873_POSITIVE 260 98 54 119 62 tfor:TF1516|3end_transposase_fragment_1626753..1626903_POSITIVE 259 79 32 131 73 tfor:TF1838|3end_tRNA/rRNA_methyltransferase_1988745..1988895_POSITIVE 257 89 44 53 2 tfor:TF2931|3end_3-deoxy-D-manno-2-octulosonic_acid_(Kdo_transferase)_3135584..3135734_POSITIVE 257 87 46 138 96 tfor:TF1427|3end_penicillin-binding_protein_2_1513612..1513762_POSITIVE 255 79 32 116 56 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 254 60 12 70 10 tfor:TF2671|3end_dipeptidyl_peptidase_IV_(DPP_IV)_N-terminal_region_2846163..2846313_POSITIVE 254 79 38 51 7 tfor:TF0148|3end_conserved_hypothetical_protein_160157..160307_POSITIVE 253 89 43 151 105 tfor:TF2617|3end_conserved_hypothetical_protein_2795172..2795322_POSITIVE