Origin IGS: aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact .........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 agttcgttcctttcatttttatgttctgcttcttatctatcaaaccccgttcctatgtgtaaagttctgacaaattggcaaaaatgctgacgttttgacacttttgcgctcttctttctttgtcttttgaaatattatttgtagttttacagtcccaatatctctactgttaaaggaatagaggaaggttttaaaaacatctgactt Mask Tandem Repeat Region ================================================ aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Find is-nt database================================================ Query_seq: PI1443:PI1444|PI1443:PI1444:conserved hypotehtical protein; possible tonB-dependent outer membrane receptor:protease ClpB:->->:1365405..1365611 207 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1443:PI1444|PI1443:PI1444:conserved hypotehtical protein; possible tonB-dependent outer membrane receptor:protease ClpB:->->:1365405..1365611 207 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1443:PI1444|PI1443:PI1444:conserved hypotehtical protein; possible tonB-dependent outer membrane receptor:protease ClpB:->->:1365405..1365611 207 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 49 End: 165 ................................................ M G T V K L Q I I F Q K T K K E E R K S V K T S A F L P I C Q N F T H R N G V .......................................... aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact 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================================================ aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1443:PI1444|PI1443:PI1444:conserved hypotehtical protein; possible tonB-dependent outer membrane receptor:protease ClpB:->->:1365405..1365611 207 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Intra-Species Hit: Count: 1 Min: 1 Max: 207 Len: 207 Subject: pint_PI1443_PI1444|conserved hypotehtical protein; possible tonB-dependent outer membrane receptor:protease ClpB|POSITIVE:POSITIVE|[1365405,1365611]|207 HSP 1 e-value: 1.0E-114 bit: 410.0 Len: 207 Query Start:1 Query End:207 Subject Strand: POSITIVE Subject Start: 1 Subject End: 207 aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact aagtcagatgtttttaaaaccttcctctattcctttaacagtagagatattgggactgtaaaactacaaataatatttcaaaagacaaagaaagaagagcgcaaaagtgtcaaaacgtcagcatttttgccaatttgtcagaactttacacataggaacggggtttgatagataagaagcagaacataaaaatgaaaggaacgaact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUCAGAUGUUUUUAAAACCUUCCUCUAUUCCUUUAACAGUAGAGAUAUUGGGACUGUAAAACUACAAAUAAUAUUUCAAAAGACAAAGAAAGAAGAGCGCAAAAGUGUCAAAACGUCAGCAUUUUUGCCAAUUUGUCAGAACUUUACACAUAGGAACGGGGUUUGAUAGAUAAGAAGCAGAACAUAAAAAUGAAAGGAACGAACU ...(((.(((((((......(((((((..(((((.........(((((((((....((((....))))..)))))))))....((((((...........((((((((((..........))))))))))...))))))..............)))))..)))............)))).))))))).....)))............ (-35.54) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUCGUUCCUUUCAUUUUUAUGUUCUGCUUCUUAUCUAUCAAACCCCGUUCCUAUGUGUAAAGUUCUGACAAAUUGGCAAAAAUGCUGACGUUUUGACACUUUUGCGCUCUUCUUUCUUUGUCUUUUGAAAUAUUAUUUGUAGUUUUACAGUCCCAAUAUCUCUACUGUUAAAGGAAUAGAGGAAGGUUUUAAAAACAUCUGACUU .........................................(((((...(((((..((((((((((..(((...(..(((....)))..).)))..)))...))))))).....((((((((.(....((.(((((..(((((....)))))....))))).))....).))))))))...))))))))))................ (-29.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 130 84 86 41 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 277 139 93 70 15 pint:PI1064|5end_hypothetical_protein_983071..983301_POSITIVE 275 198 155 73 31 pint:PI0268|5end_lysozyme-related_protein_259198..259428_POSITIVE 262 150 105 53 16 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 260 180 152 146 121 pint:PI2171|5end_conserved_hypothetical_protein_2112735..2112965_POSITIVE 257 183 141 69 32 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 256 121 82 51 2 pint:PI1145|5end_50S_ribosomal_protein_L35_1072520..1072750_POSITIVE 255 184 155 229 201 pint:PI0669|5end_hypothetical_protein_610924..611154_POSITIVE 251 169 144 231 203 pint:PI1039|5end_conserved_hypothetical_protein_957721..957951_POSITIVE 250 156 114 37 2 pint:PI2162|5end_conserved_hypothetical_protein_2108796..2109026_POSITIVE 250 162 121 209 161 pint:PI2078|5end_hypothetical_protein_2036053..2036283_POSITIVE 247 180 131 210 156 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 245 180 133 68 7 pint:PI2013|5end_hypothetical_protein_1972329..1972559_POSITIVE 244 139 91 79 32 pint:PI0519|5end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_477953..478183_POSITIVE 242 179 139 144 105 pint:PI0951|5end_hypothetical_protein_884526..884756_POSITIVE 241 134 93 107 66 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 240 185 158 35 2 pint:PI1583|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_(AICAR)/IMP_cyclohydrolase_(ATIC)_1510530..1510760_POSITIVE 240 166 121 86 40 pint:PI0263|5end_conjugative_transposon_protein,_TraM_255256..255486_POSITIVE 238 200 159 109 70 pint:PI1031|5end_hypothetical_protein_948281..948511_POSITIVE 238 167 129 86 48 pint:PI1008|5end_cytochrome_c_nitrite_reductase,_small_subunit_928784..929014_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 132 94 113 69 pint:PI0140|3end_conserved_hypothetical_protein_132106..132256_POSITIVE 275 198 155 86 44 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 260 180 152 119 94 pint:PI2170|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2112788..2112938_POSITIVE 257 183 141 59 22 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 250 162 121 146 98 pint:PI2077|3end_hypothetical_protein_2036070..2036220_POSITIVE 244 133 97 137 106 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 239 130 81 69 12 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 238 200 159 99 60 pint:PI1030|3end_biotin_carboxyl_carrier_protein_948351..948501_POSITIVE 238 200 155 80 34 pint:PI0124|3end_outer_membrane_protein/protective_antigen_OMA87_117182..117332_POSITIVE 234 150 101 142 94 pint:PI0765|3end_conserved_hypothetical_protein;_possible_surface_protein_700822..700972_POSITIVE 232 119 82 34 4 pint:PI1145|3end_50S_ribosomal_protein_L35_1072794..1072944_POSITIVE 232 131 97 118 75 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 231 137 99 124 78 pint:PI0284|3end_flavoprotein_A_270157..270307_POSITIVE 229 163 124 118 62 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 229 183 141 72 17 pint:PI1950|3end_iron-regulated_membrane_permease_1905888..1906038_POSITIVE 227 171 131 127 96 pint:PI0120|3end_glutamate_racemase_112697..112847_POSITIVE 225 136 97 149 120 pint:PI2147|3end_GTP-binding_protein_2094407..2094557_POSITIVE 224 96 52 78 37 pint:PI1170|3end_possible_response_regulator_1091398..1091548_POSITIVE 222 139 96 142 98 pint:PI1725|3end_hypothetical_protein_1643220..1643370_POSITIVE 222 129 94 102 61 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE