Origin IGS: tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatgctttagtacagtgcgaatctttttatcgatttaattttatctccccattttttatgtcattcgtttgagaagaaataggcaaagggctgaaattctccttttacagaagatgttcaaccctttgtcgaatcactctcaaatattcatgatca Mask Tandem Repeat Region ================================================ tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Find is-nt database================================================ Query_seq: TF1968:TF1969|TF1968:TF1969:conserved hypothetical protein:transcriptional regulator, AsnC family:->->:2116020..2116175 156 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1968:TF1969|TF1968:TF1969:conserved hypothetical protein:transcriptional regulator, AsnC family:->->:2116020..2116175 156 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1968:TF1969|TF1968:TF1969:conserved hypothetical protein:transcriptional regulator, AsnC family:->->:2116020..2116175 156 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 2 End: 106 . I M F I Q S H N S L P N F M K Q L L L I E A R Q R N R R L R I V Y F M .................................................. tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc 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================================================ tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 80 HP_score: -7.8 Tail_Score: -4.30719 Start: 25 End: 77 Full_Region: ATATTTGAGAGTGAT TCGACAAAGGGTTGAACATCTTCT GTAAA AGGAGAATTTCAGCCCTTTGCCTA TTTCTTCTCAAACGA ........................TCGACAAAGGGTTGAACATCTTCTGTAAAAGGAGAATTTCAGCCCTTTGCCTA............................................................................... TransTerm Strand: + Conf: 87 HP_score: -10.4 Tail_Score: -3.75817 Start: 27 End: 75 Full_Region: ATTTGAGAGTGATTC GACAAAGGGTTGAACATCTTCT GTAAA AGGAGAATTTCAGCCCTTTGCC TATTTCTTCTCAAAC ..........................GACAAAGGGTTGAACATCTTCTGTAAAAGGAGAATTTCAGCCCTTTGCC................................................................................. TransTerm Strand: - Conf: 50 HP_score: -2.2 Tail_Score: -3.89822 Start: 33 End: 69 Full_Region: gaagaaataggcaaa gggctgaaattctcct tttac agaagatgttcaaccc tttgtcgaatcactc ................................gggctgaaattctccttttacagaagatgttcaaccc....................................................................................... Find igs database================================================ Query_seq: TF1968:TF1969|TF1968:TF1969:conserved hypothetical protein:transcriptional regulator, AsnC family:->->:2116020..2116175 156 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Intra-Species Hit: Count: 1 Min: 1 Max: 156 Len: 156 Subject: tfor_TF1968_TF1969|conserved hypothetical protein:transcriptional regulator, AsnC family|POSITIVE:POSITIVE|[2116020,2116175]|156 HSP 1 e-value: 1.0E-83 bit: 309.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc tgatcatgaatatttgagagtgattcgacaaagggttgaacatcttctgtaaaaggagaatttcagccctttgcctatttcttctcaaacgaatgacataaaaaatggggagataaaattaaatcgataaaaagattcgcactgtactaaagcatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCAUGAAUAUUUGAGAGUGAUUCGACAAAGGGUUGAACAUCUUCUGUAAAAGGAGAAUUUCAGCCCUUUGCCUAUUUCUUCUCAAACGAAUGACAUAAAAAAUGGGGAGAUAAAAUUAAAUCGAUAAAAAGAUUCGCACUGUACUAAAGCAUC ...(((........)))..((((.((..((((((((((((..((((((.....))))))..))))))))))))......((((((((..................))))))))....................)).))))................ (-37.87) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGCUUUAGUACAGUGCGAAUCUUUUUAUCGAUUUAAUUUUAUCUCCCCAUUUUUUAUGUCAUUCGUUUGAGAAGAAAUAGGCAAAGGGCUGAAAUUCUCCUUUUACAGAAGAUGUUCAACCCUUUGUCGAAUCACUCUCAAAUAUUCAUGAUCA ((((.....(((.(((..(((((........))))).))).))).....))))......(((((..((((((((.......(((((((((.((((..(((.((.....)).)))..)))).))))))))).......))))))))....))))).. (-34.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 70 30 181 147 tfor:TF1988|5end_hypothetical_protein_2137237..2137467_POSITIVE 298 97 55 70 31 tfor:TF1148|5end_para-aminobenzoate_synthase_component_I_1228219..1228449_POSITIVE 288 75 33 147 92 tfor:TF3121|5end_nicotinate_phosphoribosyltransferase_3354815..3355045_POSITIVE 286 68 21 114 60 tfor:TF2453|5end_glutamate_racemase_2630422..2630652_POSITIVE 280 75 31 210 170 tfor:TF2311|5end_conserved_hypothetical_protein_2471290..2471520_POSITIVE 280 109 64 190 141 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 270 68 25 56 9 tfor:TF1545|5end_conserved_hypothetical_protein_1651134..1651364_POSITIVE 269 90 41 75 25 tfor:TF1635|5end_conserved_hypothetical_protein;_possible_helicase_1745453..1745683_POSITIVE 268 49 2 144 94 tfor:TF2600|5end_ribose-phosphate_pyrophosphokinase_2773688..2773918_POSITIVE 268 50 4 223 175 tfor:TF0288|5end_conserved_hypothetical_protein_317474..317704_POSITIVE 267 70 21 123 73 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 265 74 32 185 144 tfor:TF2282|5end_hypothetical_protein_2439401..2439631_POSITIVE 258 98 52 192 157 tfor:TF1929|5end_conserved_hypothetical_protein_2076049..2076279_POSITIVE 257 70 21 186 149 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 254 76 53 169 140 tfor:TF0474|5end_outer_membrane_efflux_protein_492104..492334_POSITIVE 252 86 47 48 10 tfor:TF2553|5end_50S_ribosomal_protein_L4_2735365..2735595_POSITIVE 252 97 55 174 128 tfor:TF2527|5end_RNA_polymerase_ECF-type_sigma_factor_2710097..2710327_POSITIVE 251 109 61 193 138 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 250 48 2 133 94 tfor:TF2580|5end_RNA_polymerase,_alpha_subunit_2747815..2748045_POSITIVE 250 76 34 193 158 tfor:TF2239|5end_hypothetical_protein_2414537..2414767_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 73 31 62 20 tfor:TF1968|3end_conserved_hypothetical_protein_2115959..2116109_POSITIVE 330 70 26 51 16 tfor:TF2385|3end_conserved_hypothetical_protein;_possible_MazG_family_protein_2551544..2551694_POSITIVE 323 70 30 150 116 tfor:TF1986|3end_hypothetical_protein_2137286..2137436_POSITIVE 280 75 31 123 83 tfor:TF2310|3end_dehydrogenase,_possible_3-oxoacyl-[acyl-carrier-protein]_reductase_2471283..2471433_POSITIVE 270 68 25 56 9 tfor:TF1544|3end_possible_transcriptional_regulator_1651214..1651364_POSITIVE 268 50 4 136 88 tfor:TF0287|3end_peptidase,_M23_family_317467..317617_POSITIVE 257 99 62 124 87 tfor:TF1660|3end_hypothetical_protein_1775600..1775750_POSITIVE 254 76 53 149 120 tfor:TF0473|3end_cation_or_acridine_efflux_membrane-fusion_protein_492164..492314_POSITIVE 252 86 47 55 17 tfor:TF2552|3end_50S_ribosomal_protein_L3_2735452..2735602_POSITIVE 252 97 55 51 5 tfor:TF2528|3end_anti-sigma_factor_2710054..2710204_POSITIVE 251 49 1 133 92 tfor:TF2902|3end_holliday_junction_DNA_helicase_3098480..3098630_POSITIVE 250 48 2 122 83 tfor:TF2579|3end_30S_ribosomal_protein_S4_2747884..2748034_POSITIVE 249 82 43 75 34 tfor:TF3005|3end_histidine_kinase_sensor_protein_3226417..3226567_POSITIVE 247 68 23 98 52 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 243 76 35 88 46 tfor:TF1852|3end_prtQ_protein_2006546..2006696_POSITIVE 242 98 52 53 10 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 239 49 4 114 76 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 238 50 1 50 10 tfor:TF1447|3end_D-ribulose-phosphate-3_epimerase_1531764..1531914_POSITIVE 237 74 41 33 2 tfor:TF2452|3end_outer_membrane_protein,_OmpH_family_2630415..2630565_POSITIVE 236 85 43 149 107 tfor:TF2903|3end_translation_initiation_factor_SUI1_3098986..3099136_POSITIVE