Origin IGS: tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaattatttctacttgacaaaagtttatagatatagcgtaaagtatctacgagcaacactttacgctatttcttttctgtcaattatgatggcttgaagttctttctaccatattgttgataccataattgcatgctggtagcttctgacgaacctatca Mask Tandem Repeat Region ================================================ tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Find is-nt database================================================ Query_seq: PI0997:PI0999|PI0997:PI0999:hypothetical protein:hypothetical protein:->->:922354..922515 162 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0997:PI0999|PI0997:PI0999:hypothetical protein:hypothetical protein:->->:922354..922515 162 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0997:PI0999|PI0997:PI0999:hypothetical protein:hypothetical protein:->->:922354..922515 162 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Predict ORF larger than 30AA ================================================ tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta 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================================================ tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 78 HP_score: -6.5 Tail_Score: -4.58076 Start: 89 End: 131 Full_Region: tgacaaaagtttata gatatagcgtaaagtat ctacgagca acactttacgctatttc ttttctgtcaattat ........................................................................................gatatagcgtaaagtatctacgagcaacactttacgctatttc............................... TransTerm Strand: + Conf: 70 HP_score: -8.8 Tail_Score: -3.02109 Start: 93 End: 127 Full_Region: TTGACAGAAAAGAAA TAGCGTAAAGTGTT GCTCGTA GATACTTTACGCTA TATCTATAAACTTTT ............................................................................................TAGCGTAAAGTGTTGCTCGTAGATACTTTACGCTA................................... TransTerm Strand: - Conf: 78 HP_score: -5.9 Tail_Score: -4.83243 Start: 93 End: 127 Full_Region: aaaagtttatagata tagcgtaaagtat ctacgagca acactttacgcta tttcttttctgtcaa ............................................................................................tagcgtaaagtatctacgagcaacactttacgcta................................... TransTerm Strand: + Conf: 62 HP_score: -7.0 Tail_Score: -3.05765 Start: 95 End: 125 Full_Region: GACAGAAAAGAAATA GCGTAAAGTGTT GCTCGTA GATACTTTACGC TATATCTATAAACTT ..............................................................................................GCGTAAAGTGTTGCTCGTAGATACTTTACGC..................................... Find igs database================================================ Query_seq: PI0997:PI0999|PI0997:PI0999:hypothetical protein:hypothetical protein:->->:922354..922515 162 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: pint_PI0997_PI0999|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[922354,922515]|162 HSP 1 e-value: 4.0E-87 bit: 321.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta tgataggttcgtcagaagctaccagcatgcaattatggtatcaacaatatggtagaaagaacttcaagccatcataattgacagaaaagaaatagcgtaaagtgttgctcgtagatactttacgctatatctataaacttttgtcaagtagaaataatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAGGUUCGUCAGAAGCUACCAGCAUGCAAUUAUGGUAUCAACAAUAUGGUAGAAAGAACUUCAAGCCAUCAUAAUUGACAGAAAAGAAAUAGCGUAAAGUGUUGCUCGUAGAUACUUUACGCUAUAUCUAUAAACUUUUGUCAAGUAGAAAUAAUUUUA ((((.((((.(.......((((((..((((.......))))........)))))).........).))))))))...(((((((((.(((.(((((((((((((((.......))))))))))))))).)))......)))))))))............... (-40.69) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUAUUUCUACUUGACAAAAGUUUAUAGAUAUAGCGUAAAGUAUCUACGAGCAACACUUUACGCUAUUUCUUUUCUGUCAAUUAUGAUGGCUUGAAGUUCUUUCUACCAUAUUGUUGAUACCAUAAUUGCAUGCUGGUAGCUUCUGACGAACCUAUCA ...............((((((.(((.....(((.((((((((((((.............)))))))))))).)))))).))))))...((((((......(((....((((((...(((.............)))...)))))).....)))....)))))) (-34.04) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 126 95 198 155 pint:PI1499|5end_hypothetical_protein_1419960..1420190_POSITIVE 285 126 97 54 20 pint:PI1823|5end_inorganic_polyphosphate/ATP-NAD_kinase_(Poly(P)/ATP_NAD_kinase)_1763238..1763468_POSITIVE 283 56 14 231 192 pint:PI0956|5end_conserved_hypothetical_protein_886077..886307_POSITIVE 269 36 3 132 83 pint:PI1832|5end_conserved_hypothetical_protein_1773161..1773391_POSITIVE 262 120 86 50 17 pint:PI2012|5end_hypothetical_protein_1970807..1971037_POSITIVE 258 145 101 115 71 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 257 118 72 69 13 pint:PI0234|5end_integrase_234473..234703_POSITIVE 252 43 1 74 30 pint:PI1492|5end_triosephosphate_isomerase_1410155..1410385_POSITIVE 251 145 102 104 50 pint:PI1687|5end_ribosome_recycling_factor_1602307..1602537_POSITIVE 251 139 95 57 12 pint:PI0798|5end_malonyl_CoA-acyl_carrier_protein_transacylase_736011..736241_POSITIVE 248 38 5 207 159 pint:PI0138|5end_hypothetical_protein_131082..131312_POSITIVE 245 42 3 58 22 pint:PI0610|5end_conserved_hypothetical_protein_557403..557633_POSITIVE 242 140 91 169 101 pint:PI1541|5end_hypothetical_protein_1461604..1461834_POSITIVE 241 60 13 204 157 pint:PI1502|5end_hypothetical_protein_1423267..1423497_POSITIVE 241 148 101 210 152 pint:PI0916|5end_hypothetical_protein_845617..845847_POSITIVE 240 126 81 189 148 pint:PI2072|5end_possible_ISmav2-related_transposase_2030737..2030967_POSITIVE 238 70 21 122 76 pint:PI2113|5end_hypothetical_protein_2063794..2064024_POSITIVE 238 70 21 63 17 pint:PI2114|5end_conserved_hypothetical_protein_2063735..2063965_POSITIVE 238 112 72 179 136 pint:PI0224|5end_conserved_hypothetical_protein_220541..220771_POSITIVE 237 128 99 176 145 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 126 95 146 103 pint:PI1498|3end_probable_membrane_associated_lipoprotein_1419988..1420138_POSITIVE 272 113 83 117 90 pint:PI1695|3end_hypothetical_protein_1610310..1610460_POSITIVE 269 36 3 58 9 pint:PI1831|3end_conserved_hypothetical_protein_1773167..1773317_POSITIVE 255 108 65 78 43 pint:PI0862|3end_polysaccharide_export_outer_membrane_protein_799122..799272_POSITIVE 243 70 21 108 37 pint:PI1178|3end_histidyl-tRNA_synthetase_1100564..1100714_POSITIVE 241 60 13 103 56 pint:PI1501|3end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1423246..1423396_POSITIVE 240 56 15 98 64 pint:PI1736|3end_topoisomerase_IV,_subunit_A_1657090..1657240_POSITIVE 238 112 72 141 98 pint:PI0223|3end_topoisomerase_IA_220583..220733_POSITIVE 237 128 99 45 14 pint:PI0431|3end_Xaa-Pro_aminopeptidase_404673..404823_POSITIVE 237 97 51 115 59 pint:PI0092|3end_regulatory_protein_RecX_89651..89801_POSITIVE 230 131 95 140 99 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 230 118 77 82 30 pint:PI1233|3end_conserved_hypothetical_protein;_possible__MazG_family_protein_1154247..1154397_POSITIVE 229 61 23 64 15 pint:PI0663|3end_possible_transcriptional_regulator_606543..606693_POSITIVE 228 113 74 137 101 pint:PI1271|3end_transcriptional_regulator,__AraC/XylS_family_1191284..1191434_POSITIVE 226 135 93 51 6 pint:PI1148|3end_50S_ribosomal_protein_L9_1075467..1075617_POSITIVE 226 134 92 105 58 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 222 70 22 61 16 pint:PI0719|3end_conserved_hypothetical_protein_654010..654160_POSITIVE 221 126 81 104 65 pint:PI0545|3end_sugar_kinase_497867..498017_POSITIVE 220 133 101 150 118 pint:PI1437|3end_hypothetical_protein_1356407..1356557_POSITIVE 220 103 66 70 41 pint:PI1063|3end_excinuclease_ABC,_subunit_B_983099..983249_POSITIVE