Origin IGS: ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaatagctatggaagaactcagcaagaccatccctaggccgctggaagtggattatatcctttcctccttccgtcagttgcaggagcagagtaccgtggacgtcggcggattccatgtgtcatcc Mask Tandem Repeat Region ================================================ ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Find is-nt database================================================ Query_seq: PI2075:PI2076|PI2075:PI2076:conserved hypothetical protein:hypothetical protein:->->:2035416..2035542 127 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2075:PI2076|PI2075:PI2076:conserved hypothetical protein:hypothetical protein:->->:2035416..2035542 127 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2075:PI2076|PI2075:PI2076:conserved hypothetical protein:hypothetical protein:->->:2035416..2035542 127 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 10 End: 126 ......... M E S A D V H G T L L L Q L T E G G K D I I H F Q R P R D G L A E F F H S Y S . Protein_Len: 41 Strand: - Start: 1 End: 123 S S V H F G G V D V T S Q E Q L Q R F S S L I Y D V E L P R P I T K S L E E M A M .... ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta 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================================================ ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2075:PI2076|PI2075:PI2076:conserved hypothetical protein:hypothetical protein:->->:2035416..2035542 127 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: pint_PI2075_PI2076|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2035416,2035542]|127 HSP 1 e-value: 2.0E-66 bit: 252.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta ggatgacacatggaatccgccgacgtccacggtactctgctcctgcaactgacggaaggaggaaaggatataatccacttccagcggcctagggatggtcttgctgagttcttccatagctattcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAUGACACAUGGAAUCCGCCGACGUCCACGGUACUCUGCUCCUGCAACUGACGGAAGGAGGAAAGGAUAUAAUCCACUUCCAGCGGCCUAGGGAUGGUCUUGCUGAGUUCUUCCAUAGCUAUUCUA (((.(((...((((((((.((..(.(((.((((....(((....)))))))..))).)..))...))))....))))....((((((((.......))))..)))).)))..)))............ (-35.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAUAGCUAUGGAAGAACUCAGCAAGACCAUCCCUAGGCCGCUGGAAGUGGAUUAUAUCCUUUCCUCCUUCCGUCAGUUGCAGGAGCAGAGUACCGUGGACGUCGGCGGAUUCCAUGUGUCAUCC ..((...((.((((((..((((.((.......(((...(((.(.((((((.(((..........)))..)))))).).)))...))))).)))).((((.(....).)))).)))))))).)).... (-34.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 59 11 163 97 pint:PI1265|5end_hypothetical_protein_1185016..1185246_POSITIVE 352 100 51 137 62 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 352 120 71 194 136 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 352 47 4 201 158 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 350 50 7 61 1 pint:PI0812|5end_conserved_hypothetical_protein;_possible_ferredoxin_750185..750415_POSITIVE 340 59 18 57 2 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 334 70 21 84 34 pint:PI1640|5end_hypothetical_protein_1558062..1558292_POSITIVE 333 68 21 187 115 pint:PI0222|5end_conserved_hypothetical_protein_217808..218038_POSITIVE 329 60 11 129 76 pint:PI2006|5end_potassium_uptake_system_protein_1964480..1964710_POSITIVE 329 47 1 58 12 pint:PI0097|5end_aspartate_aminotransferase_93235..93465_POSITIVE 326 54 15 43 1 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 320 59 12 70 16 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 320 117 84 106 58 pint:PI2044|5end_hypothetical_protein_1996999..1997229_POSITIVE 320 70 21 91 22 pint:PI0584|5end_hypothetical_protein_527352..527582_POSITIVE 318 68 28 230 181 pint:PI1314|5end_hypothetical_protein_1231188..1231418_POSITIVE 317 120 83 43 8 pint:PI1946|5end_hypothetical_protein_1902713..1902943_POSITIVE 316 59 13 224 170 pint:PI0572|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_516382..516612_POSITIVE 315 59 11 173 137 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 315 49 1 58 16 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 314 55 19 142 112 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 424 55 11 147 107 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 413 55 11 147 107 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 357 59 11 141 75 pint:PI1264|3end_hypothetical_protein_1185074..1185224_POSITIVE 350 70 21 111 42 pint:PI0201|3end_hypothetical_protein_195398..195548_POSITIVE 334 70 21 75 25 pint:PI1639|3end_conserved_hypothetical_protein_1558133..1558283_POSITIVE 333 120 83 62 13 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 333 68 21 95 23 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 329 47 1 48 2 pint:PI0096|3end_glycerol-3-phosphate_cytidylyltransferase_93305..93455_POSITIVE 325 46 11 68 24 pint:PI1634|3end_conserved_hypothetical_protein_1553819..1553969_POSITIVE 325 115 76 120 75 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 321 57 17 151 110 pint:PI0829|3end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_766539..766689_POSITIVE 319 110 61 126 63 pint:PI0189|3end_integrase_180437..180587_POSITIVE 317 120 83 115 80 pint:PI1947|3end_hypothetical_protein_1902865..1903015_POSITIVE 308 62 26 43 4 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 307 70 24 85 21 pint:PI0696|3end_NADH_pyrophosphatase,_MutT_family_hydrolase_(NAD+_diphosphatase)_633600..633750_POSITIVE 305 117 76 64 19 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 303 57 12 110 64 pint:PI0300|3end_transposase_285761..285911_POSITIVE 303 59 11 122 55 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 301 94 51 136 74 pint:PI1954|3end_translation_initiation_factor_IF-2_1911647..1911797_POSITIVE 299 99 58 55 11 pint:PI1973|3end_conserved_hypothetical_protein_1931171..1931321_POSITIVE