Origin IGS: gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagaagcccctaaaagacaaggaatatcatatatataatctttgagggatagatcaactttattccacttggcacccattgtttgcatgtctatatatgcgccaaaacttgttggagtagaggatataatttctcccactttatttatcggtagtgtctggcagcaaaagagagttcttggatacatagaaagcaagtgcagaattatatctgcccaatcggtttgatatattcgcatatgggcatctaaaataattatataaggtgtcctgcttaggctaactccaatatttc Mask Tandem Repeat Region ================================================ gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Find is-nt database================================================ Query_seq: TF2138:TF2139|TF2138:TF2139:conserved hypothetical protein:hypothetical protein:->->:2315507..2315800 294 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2138:TF2139|TF2138:TF2139:conserved hypothetical protein:hypothetical protein:->->:2315507..2315800 294 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2138:TF2139|TF2138:TF2139:conserved hypothetical protein:hypothetical protein:->->:2315507..2315800 294 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 6 End: 293 ..... M G V S L S R T P Y I I I L D A H M R I Y Q T D W A D I I L H L L S M Y P R T L F C C Q T L P I N K V G E I I S S T P T . Protein_Len: 33 Strand: - Start: 144 End: 242 ............................................................................................................................................... R Y I F H S F N Y G R S W C T K A C I Y V H L C H T G L P I F N M .................................................... Protein_Len: 60 Strand: - Start: 71 End: 253 ...................................................................... S Q A S I I R C K S E I Y G L V R K Q Q W V S G I F L T P S I I D E V G V L K P A Y I S M C V I P A L H F L T S R D R M ......................................... Protein_Len: 30 Strand: - Start: 48 End: 137 ............................................... I G M H S Y I L G I P C I Y N Q V Q K R H I W S S E K A A M ............................................................................................................................................................. gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt 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================================================ gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 52 HP_score: -3.5 Tail_Score: -3.68084 Start: 79 End: 98 Full_Region: TATATCAAACCGATT GGGCAGA TATAAT TCTGCAC TTGCTTTCTATGTAT ..............................................................................GGGCAGATATAATTCTGCAC.................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF2138:TF2139|TF2138:TF2139:conserved hypothetical protein:hypothetical protein:->->:2315507..2315800 294 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Intra-Species Hit: Count: 1 Min: 1 Max: 294 Len: 294 Subject: tfor_TF2138_TF2139|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2315507,2315800]|294 HSP 1 e-value: 1.0E-165 bit: 583.0 Len: 294 Query Start:1 Query End:294 Subject Strand: POSITIVE Subject Start: 1 Subject End: 294 gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt gaaatattggagttagcctaagcaggacaccttatataattattttagatgcccatatgcgaatatatcaaaccgattgggcagatataattctgcacttgctttctatgtatccaagaactctcttttgctgccagacactaccgataaataaagtgggagaaattatatcctctactccaacaagttttggcgcatatatagacatgcaaacaatgggtgccaagtggaataaagttgatctatccctcaaagattatatatatgatattccttgtcttttaggggcttctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAUAUUGGAGUUAGCCUAAGCAGGACACCUUAUAUAAUUAUUUUAGAUGCCCAUAUGCGAAUAUAUCAAACCGAUUGGGCAGAUAUAAUUCUGCACUUGCUUUCUAUGUAUCCAAGAACUCUCUUUUGCUGCCAGACACUACCGAUAAAUAAAGUGGGAGAAAUUAUAUCCUCUACUCCAACAAGUUUUGGCGCAUAUAUAGACAUGCAAACAAUGGGUGCCAAGUGGAAUAAAGUUGAUCUAUCCCUCAAAGAUUAUAUAUAUGAUAUUCCUUGUCUUUUAGGGGCUUCUU ........((((((..((((((..(((((..................(..((((((.((((((((((((...((....))...))))).)))).))).((((..((((((((...((((....)))).(((.((((((.(((............(((((..((.......))..)))))......))))))))))))))))))))...))))...))))))..)....((((((..((((((((.........)))))).....))..)))))).))))))))))))))))).. (-65.57) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAGCCCCUAAAAGACAAGGAAUAUCAUAUAUAUAAUCUUUGAGGGAUAGAUCAACUUUAUUCCACUUGGCACCCAUUGUUUGCAUGUCUAUAUAUGCGCCAAAACUUGUUGGAGUAGAGGAUAUAAUUUCUCCCACUUUAUUUAUCGGUAGUGUCUGGCAGCAAAAGAGAGUUCUUGGAUACAUAGAAAGCAAGUGCAGAAUUAUAUCUGCCCAAUCGGUUUGAUAUAUUCGCAUAUGGGCAUCUAAAAUAAUUAUAUAAGGUGUCCUGCUUAGGCUAACUCCAAUAUUUC .....(((.........((((((.(((.......))).)))))).((((((((.....))))))))....))).....(((..(((((((....))))))).)))....(((((((((.(((((......)))))..............(((.(((((..(.(((........))).)..))))).....((((..((((.((((.(((((.(((.....)))..)))))))))))))..((((((((..............)))))))).))))..))).))))))))).... (-73.34) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 97 52 53 5 tfor:TF2765|5end_subtilisin-like_serine_protease_2949635..2949865_POSITIVE 311 289 242 205 154 tfor:TF0445|5end_hypothetical_protein_467013..467243_POSITIVE 297 165 123 79 21 tfor:TF0219|5end_threonyl-tRNA_synthetase_243843..244073_POSITIVE 292 116 73 230 187 tfor:TF1034|5end_conserved_hypothetical_protein_1095063..1095293_POSITIVE 288 230 184 223 181 tfor:TF0594|5end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_626971..627201_POSITIVE 287 96 51 65 20 tfor:TF2090|5end_phosphoribosylglycinamide_formyltransferase_2258692..2258922_POSITIVE 284 140 94 56 1 tfor:TF1853|5end_homoserine_O-succinyltransferase_2006470..2006700_POSITIVE 283 139 91 49 3 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 283 136 93 87 44 tfor:TF1639|5end_conserved_hypothetical_protein_1747652..1747882_POSITIVE 282 257 214 67 22 tfor:TF2633|5end_ABC_transporter,_ATP-binding_protein/permease_component_2802013..2802243_POSITIVE 279 227 181 212 156 tfor:TF0767|5end_conserved_hypothetical_protein_812340..812570_POSITIVE 276 137 92 196 159 tfor:TF0253|5end_conserved_hypothetical_protein_283707..283937_POSITIVE 274 97 51 101 66 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 274 147 108 81 44 tfor:TF0257|5end_hypothetical_protein_287610..287840_POSITIVE 271 140 94 161 109 tfor:TF2504|5end_peptidyl-prolyl_cis-trans_isomerase_2680031..2680261_POSITIVE 270 97 51 73 19 tfor:TF1484|5end_penicillin_binding_protein_1579559..1579789_POSITIVE 269 108 70 113 76 tfor:TF0506|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_helicase_531031..531261_POSITIVE 267 164 129 147 102 tfor:TF0394|5end_oxaloacetate_decarboxylase,_alpha_subunit_(pyruvate_carboxylase,_C-terminal_domain)_413268..413498_POSITIVE 266 237 191 56 3 tfor:TF0375|5end_thioredoxin_reductase_393323..393553_POSITIVE 265 133 92 45 3 tfor:TF2406|5end_anti-sigma_factor_2580503..2580733_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 97 52 53 5 tfor:TF2764|3end_hypothetical_protein_2949715..2949865_POSITIVE 295 138 94 71 26 tfor:TF3031|3end_conserved_hypothetical_protein_3255086..3255236_POSITIVE 283 136 93 87 44 tfor:TF1638|3end_conserved_hypothetical_protein_1747732..1747882_POSITIVE 282 257 214 62 17 tfor:TF2631|3end_conserved_hypothetical_protein_2802088..2802238_POSITIVE 275 146 106 59 15 tfor:TF1852|3end_prtQ_protein_2006546..2006696_POSITIVE 272 97 52 44 5 tfor:TF0073|3end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_82051..82201_POSITIVE 269 108 70 105 68 tfor:TF0505|3end_4-diphosphocytidyl-2-C-methyl-D-erythritol_kinase_531103..531253_POSITIVE 262 160 116 95 39 tfor:TF0186|3end_ribonucleotide_reductase,_alpha_subunit_201812..201962_POSITIVE 261 230 185 54 12 tfor:TF1734|3end_conserved_hypothetical_protein_1860118..1860268_POSITIVE 255 160 113 46 6 tfor:TF1737|3end_outer_membrane_protein,_TonB_dependent_receptor_1865306..1865456_POSITIVE 254 134 91 54 3 tfor:TF3052|3end_conserved_hypothetical_protein_3278654..3278804_POSITIVE 254 139 91 145 91 tfor:TF2685|3end_iron-regulated_ABC-type_transporter_membrane_component_2862725..2862875_POSITIVE 254 163 122 151 109 tfor:TF1273|3end_hypothetical_protein_1357462..1357612_POSITIVE 253 145 107 144 118 tfor:TF1321|3end_conserved_hypothetical_protein_1401914..1402064_POSITIVE 253 136 94 131 91 tfor:TF1151|3end_conserved_hypothetical_protein_1233262..1233412_POSITIVE 252 115 72 80 31 tfor:TF3104|3end_outer_membrane_protein,_TonB_dependent_receptor_3337450..3337600_POSITIVE 252 241 207 69 30 tfor:TF1129|3end_possible_lantibiotic_biosynthesis_protein_1205477..1205627_POSITIVE 251 162 123 59 16 tfor:TF2215|3end_conserved_hypothetical_protein_2388249..2388399_POSITIVE 251 82 52 65 26 tfor:TF0636|3end_beta-galactosidase_673284..673434_POSITIVE 249 199 166 68 35 tfor:TF2869|3end_hypothetical_protein_3062172..3062322_POSITIVE