Origin IGS: taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta .........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 taatttccaacacacgtatgtattaagaaagaagaaagagtatagataaaacaaacggataatataggttaagcaaagaaagaatataaattaaataaagagaaaatatagttttaaaaaagagagaatatagataaaacaaagaaaccgcatcaagattgctacttgatgcggtttctttttaatgcttaaatcggctta Mask Tandem Repeat Region ================================================ taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnctttcttaatacatacgtgtgttggaaatta Find is-nt database================================================ Query_seq: PI0642:PI0644|PI0642:PI0644:thioredoxin family protein:dnaJ protein:->->:585643..585843 201 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0642:PI0644|PI0642:PI0644:thioredoxin family protein:dnaJ protein:->->:585643..585843 201 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0642:PI0644|PI0642:PI0644:thioredoxin family protein:dnaJ protein:->->:585643..585843 201 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 16 End: 108 ............... M K K K P H Q V A I L M R F L C F I Y I L S F L K L Y F L F I ............................................................................................. Protein_Len: 39 Strand: + Start: 60 End: 176 ........................................................... M F Y L Y S L F F K T I F S L Y L I Y I L S L L N L Y Y P F V L S I L F L L S ......................... taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta 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================================================ taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -16.6 Tail_Score: -4.69028 Start: 20 End: 62 Full_Region: CCGATTTAAGCATTA AAAAGAAACCGCATCAAG TAGCAAT CTTGATGCGGTTTCTTTG TTTTATCTATATTCT ...................AAAAGAAACCGCATCAAGTAGCAATCTTGATGCGGTTTCTTTG........................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -17.4 Tail_Score: -4.81083 Start: 24 End: 58 Full_Region: tatagataaaacaaa gaaaccgcatcaag attgcta cttgatgcggtttc tttttaatgcttaaa .......................gaaaccgcatcaagattgctacttgatgcggtttc............................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -12.4 Tail_Score: -4.92756 Start: 28 End: 54 Full_Region: gataaaacaaagaaa ccgcatcaag attgcta cttgatgcgg tttctttttaatgct ...........................ccgcatcaagattgctacttgatgcgg................................................................................................................................................... Find igs database================================================ Query_seq: PI0642:PI0644|PI0642:PI0644:thioredoxin family protein:dnaJ protein:->->:585643..585843 201 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcggtttctttgttttatctatattctctcttttttaaaactatattttctctttatttaatttatattctttctttgcttaacctatattatccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 201 Len: 201 Subject: pint_PI0642_PI0644|thioredoxin family protein:dnaJ protein|POSITIVE:POSITIVE|[585643,585843]|201 HSP 1 e-value: 6.0E-25 bit: 115.0 Len: 58 Query Start:144 Query End:201 Subject Strand: POSITIVE Subject Start: 144 Subject End: 201 ...............................................................................................................................................ccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta ...............................................................................................................................................ccgtttgttttatctatactctttcttctttcttaatacatacgtgtgttggaaatta HSP 2 e-value: 1.0E-22 bit: 107.0 Len: 54 Query Start:1 Query End:54 Subject Strand: POSITIVE Subject Start: 1 Subject End: 54 taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcgg................................................................................................................................................... taagccgatttaagcattaaaaagaaaccgcatcaagtagcaatcttgatgcgg................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCCGAUUUAAGCAUUAAAAAGAAACCGCAUCAAGUAGCAAUCUUGAUGCGGUUUCUUUGUUUUAUCUAUAUUCUCUCUUUUUUAAAACUAUAUUUUCUCUUUAUUUAAUUUAUAUUCUUUCUUUGCUUAACCUAUAUUAUCCGUUUGUUUUAUCUAUACUCUUUCUUCUUUCUUAAUACAUACGUGUGUUGGAAAUUA (((((.((((((((((....(((((((((((((((((.......)))))))))))))))))((((((..................))))))...................................)))))))........))).))))).....................(((((.((((((....)))))))))))... (-42.07) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUCCAACACACGUAUGUAUUAAGAAAGAAGAAAGAGUAUAGAUAAAACAAACGGAUAAUAUAGGUUAAGCAAAGAAAGAAUAUAAAUUAAAUAAAGAGAAAAUAUAGUUUUAAAAAAGAGAGAAUAUAGAUAAAACAAAGAAACCGCAUCAAGAUUGCUACUUGAUGCGGUUUCUUUUUAAUGCUUAAAUCGGCUUA ......((......(((.(((.(((.....................))).))).)))...........(((((((...............................((((.((((........)))).))))........(((((((((((((((((.......)))))))))))))))))....)))))))...)).... (-36.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 70 25 229 171 pint:PI2168|5end_hypothetical_protein_2111286..2111516_POSITIVE 301 65 22 154 114 pint:PI1791|5end_conserved_hypothetical_protein_1718489..1718719_POSITIVE 301 65 22 146 106 pint:PI1788|5end_hypothetical_protein_1718481..1718711_POSITIVE 301 65 22 79 39 pint:PI1787|5end_conserved_hypothetical_protein_1718414..1718644_POSITIVE 272 57 12 155 103 pint:PI0907|5end_NAD-dependent_DNA_ligase_834887..835117_POSITIVE 270 69 27 82 38 pint:PI0572|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_516382..516612_POSITIVE 270 75 31 189 146 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 263 70 28 210 164 pint:PI1924|5end_cytidine_deaminase_1865897..1866127_POSITIVE 259 56 27 162 136 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 256 60 26 64 25 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 255 160 126 101 62 pint:PI1804|5end_hypothetical_protein_1738109..1738339_POSITIVE 251 70 28 155 108 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 250 79 31 47 4 pint:PI1539|5end_3-phosphoshikimate_1-carboxyvinyltransferase_1459804..1460034_POSITIVE 250 80 31 89 34 pint:PI0990|5end_GDP-mannose_4,6-dehydratase_913892..914122_POSITIVE 238 66 23 152 99 pint:PI0359|5end_hypothetical_protein_328339..328569_POSITIVE 236 67 26 93 57 pint:PI2052|5end_hypothetical_protein_2008594..2008824_POSITIVE 236 157 112 147 87 pint:PI0730|5end_hypothetical_protein_661685..661915_POSITIVE 236 80 31 195 141 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 236 42 3 51 6 pint:PI0224|5end_conserved_hypothetical_protein_220541..220771_POSITIVE 233 182 145 141 98 pint:PI2178|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2117677..2117907_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 514 61 21 70 30 pint:PI0642|3end_thioredoxin_family_protein_585582..585732_POSITIVE 342 68 23 91 48 pint:PI0570|3end_exsB_protein;_possible_aluminum_resistance_protein_515395..515545_POSITIVE 312 70 25 68 10 pint:PI2165|3end_conserved_hypothetical_protein;_possible_membrane_protein_2111205..2111355_POSITIVE 299 67 22 62 19 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 292 68 22 56 13 pint:PI0121|3end_outer_membrane_protein,_ompH_family_113208..113358_POSITIVE 287 70 21 83 18 pint:PI0910|3end_possible_sodium_hydrogen_antiporter_(Na+/H+_antiporter)_839544..839694_POSITIVE 276 57 27 148 120 pint:PI0371|3end_thymidylate_synthase_341973..342123_POSITIVE 270 69 27 69 25 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 263 70 28 145 99 pint:PI1923|3end_conserved_hypothetical_protein_1865912..1866062_POSITIVE 256 57 23 142 103 pint:PI1180|3end_ferric_uptake_regulation_protein_1102409..1102559_POSITIVE 240 73 44 151 123 pint:PI0492|3end_hypothetical_protein_452458..452608_POSITIVE 236 157 112 147 87 pint:PI0729|3end_integrase_661765..661915_POSITIVE 233 182 145 94 51 pint:PI2177|3end_phosphoribosylaminoimidazole_carboxylase_2117710..2117860_POSITIVE 230 68 29 91 61 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 230 68 29 91 61 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 221 65 26 55 14 pint:PI1781|3end_membrane-associated_zinc_metalloprotease_1714551..1714701_POSITIVE 221 82 43 50 7 pint:PI0974|3end_hypothetical_protein_899591..899741_POSITIVE 218 70 24 66 21 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 216 62 29 67 25 pint:PI2044|3end_hypothetical_protein_1997351..1997501_POSITIVE 216 112 71 96 57 pint:PI0712|3end_conserved_hypothetical_protein;_possible_xylanase_650357..650507_POSITIVE