Origin IGS: tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaacgcccggcaaagttgcattttatttttgaaataaaaagaaaggcaagggaaatatccctgcctttgtgtttttactttaaaattattattgataatcagacaattatttcgatagctccctttctggagtcttacaatattcta Mask Tandem Repeat Region ================================================ tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Find is-nt database================================================ Query_seq: TF0266:TF0267|TF0266:TF0267:conserved hypothetical protein:conserved hypothetical protein:->->:295795..295942 148 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0266:TF0267|TF0266:TF0267:conserved hypothetical protein:conserved hypothetical protein:->->:295795..295942 148 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0266:TF0267|TF0266:TF0267:conserved hypothetical protein:conserved hypothetical protein:->->:295795..295942 148 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 7 End: 147 ...... M V R L Q K G S Y R N N C L I I N N N F K V K T Q R Q G Y F P C L S F Y F K N K M Q L C R A F . Protein_Len: 44 Strand: - Start: 1 End: 132 L I N Y S E L F P A I S I I T Q N D I I I K F Y F C L P L S I E R A K R K I E F I F H M ................ tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct 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================================================ tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 88 HP_score: -6.8 Tail_Score: -5.27335 Start: 79 End: 107 Full_Region: TTTAAAGTAAAAACA CAAAGGCAGGGA TATT TCCCTTGCCTTTC TTTTTATTTCAAAAA ..............................................................................CAAAGGCAGGGATATTTCCCTTGCCTTTC......................................... TransTerm Strand: + Conf: 89 HP_score: -7.6 Tail_Score: -5.12987 Start: 83 End: 103 Full_Region: AAGTAAAAACACAAA GGCAGGGA TATT TCCCTTGCC TTTCTTTTTATTTCA ..................................................................................GGCAGGGATATTTCCCTTGCC............................................. TransTerm Strand: - Conf: 80 HP_score: -7.6 Tail_Score: -4.59653 Start: 83 End: 103 Full_Region: tgaaataaaaagaaa ggcaaggga aata tccctgcc tttgtgtttttactt ..................................................................................ggcaagggaaatatccctgcc............................................. Find igs database================================================ Query_seq: TF0266:TF0267|TF0266:TF0267:conserved hypothetical protein:conserved hypothetical protein:->->:295795..295942 148 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Intra-Species Hit: Count: 1 Min: 1 Max: 148 Len: 148 Subject: tfor_TF0266_TF0267|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[295795,295942]|148 HSP 1 e-value: 8.0E-79 bit: 293.0 Len: 148 Query Start:1 Query End:148 Subject Strand: POSITIVE Subject Start: 1 Subject End: 148 tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct tagaatattgtaagactccagaaagggagctatcgaaataattgtctgattatcaataataattttaaagtaaaaacacaaaggcagggatatttcccttgcctttctttttatttcaaaaataaaatgcaactttgccgggcgttct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAUAUUGUAAGACUCCAGAAAGGGAGCUAUCGAAAUAAUUGUCUGAUUAUCAAUAAUAAUUUUAAAGUAAAAACACAAAGGCAGGGAUAUUUCCCUUGCCUUUCUUUUUAUUUCAAAAAUAAAAUGCAACUUUGCCGGGCGUUCU .((((..(((..((.((((......))))))..))).......(((((..............((((.(((((((((...(((((((((((....)))).))))))).))))))))).)))).......(((....)))))))).)))) (-34.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAACGCCCGGCAAAGUUGCAUUUUAUUUUUGAAAUAAAAAGAAAGGCAAGGGAAAUAUCCCUGCCUUUGUGUUUUUACUUUAAAAUUAUUAUUGAUAAUCAGACAAUUAUUUCGAUAGCUCCCUUUCUGGAGUCUUACAAUAUUCUA .....((((((.((((..((.......(((((((.((((((.(((((((.((((....)))))))))))...)))))).)))))))....((((((((((......))))..))))))))...)))))))).)).............. (-31.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 49 4 229 177 tfor:TF0224|5end_N-acetylglucosamine-6-phosphate_deacetylase_250268..250498_POSITIVE 284 112 74 196 154 tfor:TF1594|5end_hypothetical_protein_1709903..1710133_POSITIVE 268 99 82 118 101 tfor:TF0712|5end_TPR-repeat-containing_protein_761348..761578_POSITIVE 259 108 81 60 30 tfor:TF1603|5end_RNA_polymerase_ECF-type_sigma_factor_1717176..1717406_POSITIVE 256 130 84 137 84 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 254 119 82 176 136 tfor:TF1548|5end_thiophene_and_furan_oxidation_protein_1652501..1652731_POSITIVE 251 130 82 180 125 tfor:TF1045|5end_conserved_hypothetical_protein_1107665..1107895_POSITIVE 250 103 67 156 120 tfor:TF2778|5end_outer_membrane_protein,__TonB_dependent_receptor_2961823..2962053_POSITIVE 247 110 69 73 24 tfor:TF2118|5end_conserved_hypothetical_protein_2289961..2290191_POSITIVE 244 104 78 55 22 tfor:TF2081|5end_phosphopantetheine_adenylyltransferase_2248475..2248705_POSITIVE 238 116 82 175 140 tfor:TF2663|5end_hypothetical_protein_2837152..2837382_POSITIVE 237 50 6 227 179 tfor:TF0451|5end_rhomboid_family_membrane_protein_470085..470315_POSITIVE 236 112 82 225 182 tfor:TF2653|5end_hypothetical_protein_2822093..2822323_POSITIVE 234 102 62 88 44 tfor:TF0013|5end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_6414..6644_POSITIVE 232 105 80 27 6 tfor:TF1523|5end_hypothetical_protein_1630273..1630503_POSITIVE 231 106 67 38 10 tfor:TF2336|5end_conserved_hypothetical_protein_2496169..2496399_POSITIVE 228 48 5 216 168 tfor:TF2332|5end_signal_peptidase_I_2491694..2491924_POSITIVE 228 102 79 60 33 tfor:TF2176|5end_hypothetical_protein_2348911..2349141_POSITIVE 228 48 16 63 32 tfor:TF1664|5end_conserved_hypothetical_protein_1778761..1778991_POSITIVE 228 113 88 128 104 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 106 79 67 31 tfor:TF2482|3end_hypothetical_protein_2659185..2659335_POSITIVE 283 130 85 43 1 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 268 99 82 75 58 tfor:TF0710|3end_two_component_system_histidine_kinase_761385..761535_POSITIVE 254 119 82 66 26 tfor:TF1547|3end_conserved_hypothetical_protein_1652471..1652621_POSITIVE 250 103 67 66 30 tfor:TF2776|3end_hypothetical_protein_2961813..2961963_POSITIVE 244 104 78 55 22 tfor:TF2080|3end_carboxyl-terminal_protease_2248555..2248705_POSITIVE 239 130 88 75 39 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 238 116 82 74 39 tfor:TF2662|3end_hypothetical_protein_2837131..2837281_POSITIVE 238 41 13 71 39 tfor:TF2055|3end_UDP-N-acetyl-D-mannosaminuronic_acid_dehydrogenase_2220784..2220934_POSITIVE 236 112 82 66 23 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 225 130 88 51 15 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 223 103 73 68 32 tfor:TF0494|3end_conserved_hypothetical_protein_520906..521056_POSITIVE 218 48 2 53 7 tfor:TF2599|3end_alpha-amylase_family_protein_2773663..2773813_POSITIVE 217 119 82 91 49 tfor:TF2604|3end_possible_membrane_transport_protein_2779832..2779982_POSITIVE 215 112 86 149 113 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 214 52 16 67 39 tfor:TF1362|3end_hypothetical_protein_1444059..1444209_POSITIVE 213 112 86 71 35 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 213 112 86 90 54 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 210 114 76 54 6 tfor:TF0912|3end_transposase_954969..955119_POSITIVE 209 35 2 126 96 tfor:TF0512|3end_2-oxoglutarate_oxidoreductase,_alpha_subunit_538264..538414_POSITIVE