Origin IGS: tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa .........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 ttatagcttttagactttaaaaaatcgggtgcaaagatattatttttctacaaaacggaaaagagaataaaacaaaaaaagcaaataataagatataaaaactttgtggattaatgtttatttcttatttttgcatatcaataaaagaactattctattttataaataggaagactctggaatttgatagaattaaactgaaaaagcttttaaagctatagatttatgaataatatctttcgtggattaggaatagca Mask Tandem Repeat Region ================================================ tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Find is-nt database================================================ Query_seq: PI0864:PI0865|PI0864:PI0865:dihydrodipicolinate synthase:possible phosphoglycerol transferase:->->:801519..801776 258 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0864:PI0865|PI0864:PI0865:dihydrodipicolinate synthase:possible phosphoglycerol transferase:->->:801519..801776 258 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0864:PI0865|PI0864:PI0865:dihydrodipicolinate synthase:possible phosphoglycerol transferase:->->:801519..801776 258 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 138 End: 239 ......................................................................................................................................... M N I N P Q S F Y I L L F A F F V L F S F P F C R K I I S L H P I F ................... Protein_Len: 35 Strand: - Start: 41 End: 145 ........................................ L K L L K K L K I R D F E L T K R N I F Y F L E K I S I C F Y S I F M ................................................................................................................. tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa 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================================================ tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0864:PI0865|PI0864:PI0865:dihydrodipicolinate synthase:possible phosphoglycerol transferase:->->:801519..801776 258 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaagtttttatatcttattatttgctttttttgttttattctcttttccgttttgtagaaaaataatatctttgcacccgattttttaaagtctaaaagctataa Intra-Species Hit: Count: 1 Min: 1 Max: 157 Len: 157 Subject: pint_PI0864_PI0865|dihydrodipicolinate synthase:possible phosphoglycerol transferase|POSITIVE:POSITIVE|[801519,801776]|258 HSP 1 e-value: 6.0E-84 bit: 311.0 Len: 157 Query Start:1 Query End:157 Subject Strand: POSITIVE Subject Start: 1 Subject End: 157 tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaag..................................................................................................... tgctattcctaatccacgaaagatattattcataaatctatagctttaaaagctttttcagtttaattctatcaaattccagagtcttcctatttataaaatagaatagttcttttattgatatgcaaaaataagaaataaacattaatccacaaag..................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAUUCCUAAUCCACGAAAGAUAUUAUUCAUAAAUCUAUAGCUUUAAAAGCUUUUUCAGUUUAAUUCUAUCAAAUUCCAGAGUCUUCCUAUUUAUAAAAUAGAAUAGUUCUUUUAUUGAUAUGCAAAAAUAAGAAAUAAACAUUAAUCCACAAAG ................(....)...................((((.....))))......(((((.(((((((((.....((((.((..(((((.....)))))...))))))....)))))...........)))).))))).............. (-14.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUGUGGAUUAAUGUUUAUUUCUUAUUUUUGCAUAUCAAUAAAAGAACUAUUCUAUUUUAUAAAUAGGAAGACUCUGGAAUUUGAUAGAAUUAAACUGAAAAAGCUUUUAAAGCUAUAGAUUUAUGAAUAAUAUCUUUCGUGGAUUAGGAAUAGCA .........((((.((((.((((...(((.....((((((....(((....(((((((.....)))))))....))).....)))))).....)))..))))))))..)))).(((((.((((((((((........))))))))))....))))). (-25.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 229 97 51 130 83 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 228 95 51 212 172 pint:PI1242|5end_tRNA_(guanine-N1-)-methyltransferase_1167162..1167392_POSITIVE 221 89 52 50 18 pint:PI0291|5end_hypothetical_protein_274067..274297_POSITIVE 210 105 70 181 140 pint:PI0856|5end_hypothetical_protein_789581..789811_POSITIVE 205 122 82 179 133 pint:PI1049|5end_hypothetical_protein_967172..967402_POSITIVE 198 89 46 203 157 pint:PI2052|5end_hypothetical_protein_2008594..2008824_POSITIVE 196 59 17 196 160 pint:PI1356|5end_hypothetical_protein_1273162..1273392_POSITIVE 191 98 60 65 24 pint:PI0281|5end_conserved_hypothetical_protein_266309..266539_POSITIVE 190 88 61 231 207 pint:PI0428|5end_hypothetical_protein_393080..393310_POSITIVE 188 58 16 180 139 pint:PI2110|5end_ISPg3-related_transposase_(IS195_family)_2061470..2061700_POSITIVE 188 60 21 182 143 pint:PI1982|5end_conserved_hypothetical_protein_1938439..1938669_POSITIVE 188 58 16 180 139 pint:PI1762|5end_ISPg3-related_transposase_1684669..1684899_POSITIVE 188 58 16 180 139 pint:PI1714|5end_ISPg3-related_transposase_1630376..1630606_POSITIVE 188 58 16 180 139 pint:PI0808|5end_ISPg3-related_transposase_745481..745711_POSITIVE 188 58 16 180 139 pint:PI0326|5end_ISPg3-related_transposase_306792..307022_POSITIVE 188 58 16 180 139 pint:PI0298|5end_ISPg3-related_transposase_283688..283918_POSITIVE 188 58 16 180 139 pint:PI0172|5end_ISPg3-related_transposase_164262..164492_POSITIVE 188 84 43 170 129 pint:PI0068|5end_arginine_repressor_66586..66816_POSITIVE 187 93 52 147 119 pint:PI1444|5end_protease_ClpB_1365472..1365702_POSITIVE 185 72 36 46 18 pint:PI1189|5end_conserved_hypothetical_protein_1107114..1107344_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 229 97 51 72 25 pint:PI1549|3end_conserved_hypothetical_protein_1467382..1467532_POSITIVE 221 89 52 34 2 pint:PI0290|3end_conserved_hypothetical_protein_274131..274281_POSITIVE 219 41 2 85 53 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 210 105 70 65 24 pint:PI0855|3end_hypothetical_protein_789545..789695_POSITIVE 205 122 82 120 74 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 196 59 17 114 78 pint:PI1355|3end_possible_capsular_polysaccharide_biosynthesis_protein_1273160..1273310_POSITIVE 191 98 60 50 9 pint:PI0280|3end_conserved_hypothetical_protein_266374..266524_POSITIVE 190 72 41 145 114 pint:PI1826|3end_ATP-dependent_DNA_helicase_1767823..1767973_POSITIVE 188 58 16 88 47 pint:PI1760|3end_hypothetical_protein_1684657..1684807_POSITIVE 188 58 16 52 11 pint:PI0325|3end_ISPg3-related_transposase_fragment_306744..306894_POSITIVE 188 84 43 90 49 pint:PI0067|3end_hypothetical_protein_66586..66736_POSITIVE 185 72 36 97 69 pint:PI1187|3end_conserved_hypothetical_protein_1107245..1107395_POSITIVE 182 88 43 53 11 pint:PI0402|3end_conserved_hypothetical_protein_370023..370173_POSITIVE 172 88 42 141 92 pint:PI1779|3end_16S_rRNA_processing_protein_1711933..1712083_POSITIVE 172 127 83 61 19 pint:PI1587|3end_conserved_hypothetical_protein;_possible_permease_1516266..1516416_POSITIVE 172 99 51 140 84 pint:PI1001|3end_hypothetical_protein_923922..924072_POSITIVE 170 60 12 127 78 pint:PI1614|3end_hypothetical_protein_1541408..1541558_POSITIVE 169 56 16 151 112 pint:PI2109|3end_surface_antigen_BspA_2061523..2061673_POSITIVE 169 116 77 75 45 pint:PI0389|3end_integrase_357386..357536_POSITIVE 168 91 61 107 79 pint:PI0340|3end_conserved_hypothetical_protein_316735..316885_POSITIVE