Origin IGS: taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttaatattaatattcaattcgtatgggttggaaagttcggagtggcaggcaagagatcgcctgccatccttcctttccatttaatgaataccttatta Mask Tandem Repeat Region ================================================ taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Find is-nt database================================================ Query_seq: TF2662:TF2663|TF2662:TF2663:hypothetical protein:hypothetical protein:->->:2837192..2837291 100 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2662:TF2663|TF2662:TF2663:hypothetical protein:hypothetical protein:->->:2837192..2837291 100 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2662:TF2663|TF2662:TF2663:hypothetical protein:hypothetical protein:->->:2837192..2837291 100 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 1 End: 93 L L T N M L H F P L I A P S R K G A V G F K G V W V F Q I N M ....... taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa 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================================================ taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 83 HP_score: -10.5 Tail_Score: -3.76968 Start: 20 End: 70 Full_Region: tcaattcgtatgggt tggaaagttcggagtggcaggcaa gaga tcgcctgccatccttcctttcca tttaatgaatacctt ...................tggaaagttcggagtggcaggcaagagatcgcctgccatccttcctttcca.............................. TransTerm Strand: - Conf: 74 HP_score: -11.0 Tail_Score: -2.90685 Start: 33 End: 56 Full_Region: ttggaaagttcggag tggcaggcaa gaga tcgcctgcca tccttcctttccatt ................................tggcaggcaagagatcgcctgcca............................................ Find igs database================================================ Query_seq: TF2662:TF2663|TF2662:TF2663:hypothetical protein:hypothetical protein:->->:2837192..2837291 100 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: tfor_TF2662_TF2663|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2837192,2837291]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa taataaggtattcattaaatggaaaggaaggatggcaggcgatctcttgcctgccactccgaactttccaacccatacgaattgaatattaatattaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAGGUAUUCAUUAAAUGGAAAGGAAGGAUGGCAGGCGAUCUCUUGCCUGCCACUCCGAACUUUCCAACCCAUACGAAUUGAAUAUUAAUAUUAAAA (((((.((((((((.....(((((((...(((((((((((((....)))))))))).)))...)))))))...(....)...))))))))..)))))... (-36.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAAUAUUAAUAUUCAAUUCGUAUGGGUUGGAAAGUUCGGAGUGGCAGGCAAGAGAUCGCCUGCCAUCCUUCCUUUCCAUUUAAUGAAUACCUUAUUA .........(((((....((((((.(((((.((((((...(((.((((((((........)))))))))))...)))))))))))))))))....))))) (-33.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 80 32 56 8 tfor:TF2598|5end_conserved_hypothetical_protein_2771032..2771262_POSITIVE 375 60 19 105 59 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 360 79 31 63 14 tfor:TF2722|5end_conserved_hypothetical_protein_2896792..2897022_POSITIVE 357 55 31 48 24 tfor:TF1621|5end_DNA_replication_and_repair_protein_RecF_1735293..1735523_POSITIVE 355 70 21 110 59 tfor:TF2983|5end_hypothetical_protein_3198204..3198434_POSITIVE 345 69 23 62 8 tfor:TF2305|5end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2461348..2461578_POSITIVE 336 63 21 126 70 tfor:TF2230|5end_CTn_excision_protein_2399799..2400029_POSITIVE 331 68 22 68 18 tfor:TF3055|5end_hypothetical_protein_3278775..3279005_POSITIVE 329 79 33 211 148 tfor:TF2444|5end_regulatory_protein_RecX_2620957..2621187_POSITIVE 326 75 38 203 162 tfor:TF1151|5end_conserved_hypothetical_protein_1232922..1233152_POSITIVE 323 69 25 56 8 tfor:TF2548|5end_30S_ribosomal_protein_S12_2731238..2731468_POSITIVE 322 70 21 197 147 tfor:TF2361|5end_conserved_hypothetical_protein_2527338..2527568_POSITIVE 322 70 21 214 165 tfor:TF2255|5end_transfer_region-related_protein,_TraH_2427504..2427734_POSITIVE 321 61 21 219 189 tfor:TF3147|5end_adenylate_kinase_3383049..3383279_POSITIVE 320 56 17 104 66 tfor:TF1299|5end_conserved_hypothetical_protein_1380937..1381167_POSITIVE 319 54 11 230 182 tfor:TF0721|5end_aspartate_transaminase_771353..771583_POSITIVE 317 76 33 191 137 tfor:TF2259|5end_transfer_region-related_protein,_TraK_2429577..2429807_POSITIVE 317 73 33 222 172 tfor:TF1301|5end_hypothetical_protein_1383099..1383329_POSITIVE 316 57 11 180 116 tfor:TF1018|5end_50S_ribosomal_protein_L9_1074815..1075045_POSITIVE 315 79 31 175 133 tfor:TF2037|5end_conserved_hypothetical_protein;_possible_anaerobic_ribonucleoside-triphosphate_reductase_2196754..2196984_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 553 70 21 71 22 tfor:TF2662|3end_hypothetical_protein_2837131..2837281_POSITIVE 360 79 31 147 98 tfor:TF2721|3end_conserved_hypothetical_protein_2896956..2897106_POSITIVE 331 68 22 102 52 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 316 70 21 55 10 tfor:TF3153|3end_conserved_hypothetical_protein_3389324..3389474_POSITIVE 313 66 21 147 102 tfor:TF2982|3end_O-unit_flippase_3198327..3198477_POSITIVE 308 61 35 144 116 tfor:TF0174|3end_hypothetical_protein_185600..185750_POSITIVE 305 63 21 116 66 tfor:TF3157|3end_sodium/solute_symporter_3393787..3393937_POSITIVE 305 63 24 124 84 tfor:TF0581|3end_single_stranded_DNA-binding_protein_611932..612082_POSITIVE 303 70 23 79 41 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 300 67 31 101 38 tfor:TF1474|3end_6-phosphogluconolactonase_1568123..1568273_POSITIVE 299 68 30 48 3 tfor:TF0822|3end_hypothetical_protein_880764..880914_POSITIVE 298 55 19 138 98 tfor:TF2272|3end_conserved_hypothetical_protein_2436514..2436664_POSITIVE 291 66 21 89 49 tfor:TF3165|3end_thiol:disulfide_interchange_protein,_thioredoxin_family_protein_3405343..3405493_POSITIVE 291 69 30 64 7 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 290 69 26 147 102 tfor:TF2876|3end_cytosine_deaminase_3065664..3065814_POSITIVE 290 80 35 148 98 tfor:TF1862|3end_hypothetical_protein_2018784..2018934_POSITIVE 290 69 25 118 68 tfor:TF0407|3end_lipoate-protein_ligase_B_(lipoyltransferase)_425844..425994_POSITIVE 289 69 29 151 98 tfor:TF2257|3end_transfer_region-related_protein,_TraJ_2429622..2429772_POSITIVE 287 60 17 55 10 tfor:TF0624|3end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_661015..661165_POSITIVE 284 69 34 37 1 tfor:TF2029|3end_conserved_hypothetical_protein_2185813..2185963_POSITIVE