Origin IGS: aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaataaggccgctgaaaagcgaccttggggcggtacacggtcattacttcgaccctgtccctacgtatctctacgcactgcaaatatacaataaaaatccgttacttccaacaaaagcagcggatttt Mask Tandem Repeat Region ================================================ aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Find is-nt database================================================ Query_seq: PI1637:PI1638|PI1637:PI1638:hypothetical protein:conserved hypothetical protein:->->:1555345..1555476 132 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1637:PI1638|PI1637:PI1638:hypothetical protein:conserved hypothetical protein:->->:1555345..1555476 132 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1637:PI1638|PI1637:PI1638:hypothetical protein:conserved hypothetical protein:->->:1555345..1555476 132 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 31 End: 132 .............................. M F I V Y L Q C V E I R R D R V E V M T V Y R P K V A F Q R P Y F L Protein_Len: 34 Strand: - Start: 3 End: 104 .. I R Q K Q Q F Y R I K I T Y K C H T S I R L S L T S T I V T Y R G M ............................ Protein_Len: 42 Strand: - Start: 1 End: 126 F D A A K T P L L P N K N Y I Q L A Y L Y T P V P D F Y H G H V A G L D S K L P R M ...... aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta 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: 83 Start: 17 End: 46 ................GTTGGAAGTAACGGATTTTTATTGTATATT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1637:PI1638|PI1637:PI1638:hypothetical protein:conserved hypothetical protein:->->:1555345..1555476 132 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: pint_PI1637_PI1638|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1555345,1555476]|132 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta aaaatccgctgcttttgttggaagtaacggatttttattgtatatttgcagtgcgtagagatacgtagggacagggtcgaagtaatgaccgtgtaccgccccaaggtcgcttttcagcggccttatttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUCCGCUGCUUUUGUUGGAAGUAACGGAUUUUUAUUGUAUAUUUGCAGUGCGUAGAGAUACGUAGGGACAGGGUCGAAGUAAUGACCGUGUACCGCCCCAAGGUCGCUUUUCAGCGGCCUUAUUUUUUA ((((((((.((((((.....)))))).)))))))).((((((....))))))(((((....))))).((.(((.(((((......))))).))).)).....(((((((((....)))))))))........ (-46.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAAUAAGGCCGCUGAAAAGCGACCUUGGGGCGGUACACGGUCAUUACUUCGACCCUGUCCCUACGUAUCUCUACGCACUGCAAAUAUACAAUAAAAAUCCGUUACUUCCAACAAAAGCAGCGGAUUUU ........((((.((((....)))).))))(((((((.....((((........)))))))))))..((((....))))..................((((((((((.(((.......))).)))))))))) (-38.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 415 90 50 186 143 pint:PI0806|5end_heavy_metal_efflux_pump_743679..743909_POSITIVE 371 110 65 156 110 pint:PI1205|5end_hypothetical_protein_1127047..1127277_POSITIVE 371 110 65 86 40 pint:PI1207|5end_hypothtical_protein_1126977..1127207_POSITIVE 370 120 78 42 1 pint:PI0098|5end_conserved_hypothetical_protein_(possible_glycosyl/glycerophosphate_transferase)_94622..94852_POSITIVE 348 110 64 218 170 pint:PI1257|5end_dTDP-4-dehydrorhamnose_reductase_1177971..1178201_POSITIVE 345 121 87 44 3 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 341 125 89 56 28 pint:PI0139|5end_pyridoxine_biosynthesis_protein_131835..132065_POSITIVE 337 118 75 62 8 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 332 99 52 148 101 pint:PI0584|5end_hypothetical_protein_527352..527582_POSITIVE 330 110 76 229 200 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 328 100 51 87 12 pint:PI0834|5end_conserved_hypothetical_protein_770785..771015_POSITIVE 327 120 71 184 126 pint:PI2036|5end_hypothetical_protein_1989239..1989469_POSITIVE 324 99 58 81 29 pint:PI2140|5end_conserved_hypothetical_protein_2086773..2087003_POSITIVE 324 121 92 39 1 pint:PI0811|5end_protease/hemagglutinin_PrtT,_streptopain_family_746738..746968_POSITIVE 323 118 86 215 183 pint:PI0968|5end_hypothetical_protein_895946..896176_POSITIVE 321 89 44 95 41 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 320 100 53 47 3 pint:PI2026|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1979497..1979727_POSITIVE 317 100 54 95 43 pint:PI0943|5end_conserved_hypothetical_protein_875153..875383_POSITIVE 316 119 72 207 159 pint:PI2010|5end_ABC_transporter,_permease_component_1968936..1969166_POSITIVE 315 99 51 73 27 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 97 51 150 99 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 332 130 82 95 46 pint:PI0570|3end_exsB_protein;_possible_aluminum_resistance_protein_515395..515545_POSITIVE 329 99 52 81 18 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 328 127 88 50 12 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 321 89 44 95 41 pint:PI0090|3end_amidophosphoribosyltransferase_89160..89310_POSITIVE 317 100 54 111 59 pint:PI0944|3end_hypothetical_protein_875249..875399_POSITIVE 314 100 51 97 53 pint:PI2129|3end_octaprenyl-diphosphate_synthase_2077721..2077871_POSITIVE 312 117 72 68 13 pint:PI2159|3end_immunoreactive_84_kDa_antigen_PG93_2107371..2107521_POSITIVE 310 123 86 43 6 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 308 90 42 123 72 pint:PI0320|3end_probable_cobalamin_adenosyltransferase_302652..302802_POSITIVE 304 120 72 78 14 pint:PI1531|3end_biotin--acetyl-CoA-carboxylase_ligase_1451734..1451884_POSITIVE 302 89 48 65 21 pint:PI0804|3end_conserved_hypothetical_protein;_possible_membrane_protein_742790..742940_POSITIVE 302 116 72 131 72 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 295 110 62 41 5 pint:PI1830|3end_conserved_hypothetical_protein_1770361..1770511_POSITIVE 295 111 72 66 29 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 295 98 51 118 56 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 295 110 67 133 86 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 292 108 65 58 11 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 292 109 61 86 35 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 286 99 52 52 4 pint:PI1452|3end_possible_nicotinamide_mononucleotide_transporter_1376062..1376212_POSITIVE