Origin IGS: tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaataagaaaagtatttgcagactgtaagcgtttgtagatagcaagcatataagtaagaaaataataaaatgacgatggggaatgtccccgttttcaccacatatcaaatattttagaatgggatttttttcatttatccaggaaatagca Mask Tandem Repeat Region ================================================ tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Find is-nt database================================================ Query_seq: PI1582:PI1583|PI1582:PI1583:cell shape-determining protein:phosphoribosylaminoimidazolecarboxamide formyltransferase (AICAR)/IMP cyclohydrolase (ATIC):->->:1510518..1510669 152 tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1582:PI1583|PI1582:PI1583:cell shape-determining protein:phosphoribosylaminoimidazolecarboxamide formyltransferase (AICAR)/IMP cyclohydrolase (ATIC):->->:1510518..1510669 152 tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1582:PI1583|PI1582:PI1583:cell shape-determining protein:phosphoribosylaminoimidazolecarboxamide formyltransferase (AICAR)/IMP cyclohydrolase (ATIC):->->:1510518..1510669 152 tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 5 End: 151 .... M S W I N E K N P I L K Y L I C G E N G D I P H R H F I I F L L I C L L S T N A Y S L Q I L F L F . Protein_Len: 34 Strand: + Start: 51 End: 152 .................................................. M V K T G T F P I V I L L F S Y L Y A C Y L Q T L T V C K Y F S Y L tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 32 End: 61 ...............................GTTTTCACCACATATCAAATATTTTAGAAT........................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -3.6 Tail_Score: -5.14949 Start: 55 End: 81 Full_Region: ATATTTGATATGTGG TGAAAACGGGGA CAT TCCCCATCGTCA TTTTATTATTTTCTT ......................................................TGAAAACGGGGACATTCCCCATCGTCA....................................................................... TransTerm Strand: - Conf: 77 HP_score: -7.8 Tail_Score: -4.09243 Start: 61 End: 75 Full_Region: ataataaaatgacga tgggga atg tccccg ttttcaccacatatc ............................................................tggggaatgtccccg............................................................................. TransTerm Strand: - Conf: 74 HP_score: -9.1 Tail_Score: -3.05224 Start: 62 End: 74 Full_Region: taataaaatgacgat gggga atg tcccc gttttcaccacatat .............................................................ggggaatgtcccc.............................................................................. Find igs database================================================ Query_seq: PI1582:PI1583|PI1582:PI1583:cell shape-determining protein:phosphoribosylaminoimidazolecarboxamide formyltransferase (AICAR)/IMP cyclohydrolase (ATIC):->->:1510518..1510669 152 tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Intra-Species Hit: Count: 1 Min: 1 Max: 152 Len: 152 Subject: pint_PI1582_PI1583|cell shape-determining protein:phosphoribosylaminoimidazolecarboxamide formyltransferase (AICAR)/IMP cyclohydrolase (ATIC)|POSITIVE:POSITIVE|[1510518,1510669]|152 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 152 Query Start:1 Query End:152 Subject Strand: POSITIVE Subject Start: 1 Subject End: 152 tgctatttcctggataaatgnnnnnnntcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta tgctatttcctggataaatgaaaaaaatcccattctaaaatatttgatatgtggtgaaaacggggacattccccatcgtcattttattattttcttacttatatgcttgctatctacaaacgcttacagtctgcaaatacttttcttattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAUUUCCUGGAUAAAUGAAAAAAAUCCCAUUCUAAAAUAUUUGAUAUGUGGUGAAAACGGGGACAUUCCCCAUCGUCAUUUUAUUAUUUUCUUACUUAUAUGCUUGCUAUCUACAAACGCUUACAGUCUGCAAAUACUUUUCUUAUUUA ..........(((((((..(((((....................(((((...(((((....((((.....))))....))))).)))))..........(((.(((..(((................)))..))).))).)))))))))))) (-19.79) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAAGAAAAGUAUUUGCAGACUGUAAGCGUUUGUAGAUAGCAAGCAUAUAAGUAAGAAAAUAAUAAAAUGACGAUGGGGAAUGUCCCCGUUUUCACCACAUAUCAAAUAUUUUAGAAUGGGAUUUUUUUCAUUUAUCCAGGAAAUAGCA .............(((((((((((.......)))))))))))....((.......................(((.(((((((.....))))))).)))...................(((((..(....)..)))))............)). (-31.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 80 51 50 23 pint:PI0408|5end_hypothetical_protein_374154..374384_POSITIVE 275 134 110 52 24 pint:PI1173|5end_transcription_regulatory_protein,_LacI_family_1095051..1095281_POSITIVE 262 110 63 136 85 pint:PI1398|5end_probable_imidazolonepropionase_1319429..1319659_POSITIVE 261 79 38 224 189 pint:PI0631|5end_50S_ribosomal_protein_L25/general_stress_protein_577706..577936_POSITIVE 259 82 44 198 157 pint:PI0398|5end_hypothetical_protein_363378..363608_POSITIVE 254 78 49 31 7 pint:PI2072|5end_possible_ISmav2-related_transposase_2030737..2030967_POSITIVE 250 88 46 162 111 pint:PI0411|5end_conserved_hypothetial_protein;_possible_hydrolase_377700..377930_POSITIVE 249 106 73 143 112 pint:PI0892|5end_acyl-ACP_thioesterase_823131..823361_POSITIVE 248 140 104 145 107 pint:PI0980|5end_conserved_hypothetical_protein_905703..905933_POSITIVE 248 134 94 68 25 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 247 131 91 176 132 pint:PI2045|5end_hypothetical_protein_1998494..1998724_POSITIVE 245 136 104 65 32 pint:PI0837|5end_conserved_hypothetical_protein_772308..772538_POSITIVE 244 148 110 143 97 pint:PI0985|5end_aspartyl-tRNA_synthetase_910174..910404_POSITIVE 239 141 111 43 17 pint:PI1758|5end_hypothetical_protein_1683207..1683437_POSITIVE 239 140 103 95 60 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 237 146 104 61 13 pint:PI0774|5end_phosphoserine_aminotransferase_(phosphoserine_transaminase)_709497..709727_POSITIVE 236 96 51 217 175 pint:PI1879|5end_uracil_phosphoribosyltransferase_1820671..1820901_POSITIVE 234 80 43 35 5 pint:PI2086|5end_signal_peptidase_I_2041835..2042065_POSITIVE 233 88 53 43 13 pint:PI1808|5end_LacI_family_transcriptional_regulator_1742167..1742397_POSITIVE 229 80 50 216 181 pint:PI0409|5end_3-deoxy-D-manno-octulosonic-acid_transferase_(kdotransferase)_374648..374878_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 110 63 58 7 pint:PI1397|3end_histidine_ammonia-lyase_1319431..1319581_POSITIVE 261 79 38 132 97 pint:PI0630|3end_peptidyl-tRNA_hydrolase_(aminoacyl-tRNA_hydrolase)_577694..577844_POSITIVE 255 132 101 134 98 pint:PI0140|3end_conserved_hypothetical_protein_132106..132256_POSITIVE 248 140 104 40 2 pint:PI0979|3end_transcriptional_regulator,_tetR_family_905678..905828_POSITIVE 245 136 104 50 17 pint:PI0836|3end_conserved_hypothetical_protein_772373..772523_POSITIVE 226 145 104 74 35 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 224 147 104 116 65 pint:PI1355|3end_possible_capsular_polysaccharide_biosynthesis_protein_1273160..1273310_POSITIVE 222 80 50 134 100 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 221 86 62 117 93 pint:PI0912|3end_conserved_hypothetical_protein_842692..842842_POSITIVE 221 83 42 59 19 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 216 133 94 122 85 pint:PI1768|3end_conserved_hypothetical_protein_1696639..1696789_POSITIVE 216 146 107 109 74 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 215 78 59 118 94 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 212 78 32 58 14 pint:PI1538|3end_conserved_hypothetical_protein_1459862..1460012_POSITIVE 211 115 77 72 36 pint:PI1646|3end_hypothetical_protein_1563128..1563278_POSITIVE 211 107 62 122 59 pint:PI1021|3end_conserved_hypothetical_protein;_possible_methyltransferase_939634..939784_POSITIVE 211 150 104 92 35 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 208 142 102 82 44 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 208 148 121 33 1 pint:PI0984|3end_hypothetical_protein_910144..910294_POSITIVE 207 97 54 51 9 pint:PI1621|3end_hypothetical_protein_1545740..1545890_POSITIVE