Origin IGS: tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatcatagttgcatcgtaagggctcgattctttgtgctcatcatatccaaaactatttttgttaggtgttaggaacgtgatgaatcacacccttacagatgttatctactcttttctatgctgtttagcaactgccataagcacctaagaagaaagttgtttcacctataaaatcctattaaaacgatagatgtatttaaacgtatggtatttttgagagatttaaacaaaaaagaagacttgcaaccgcatactatcagcgattgcaagtcttttatattttaccaaaggatttcagcaaatatcaattaaaaacta Mask Tandem Repeat Region ================================================ tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Find is-nt database================================================ Query_seq: PI1040:PI1041|PI1040:PI1041:8-amino-7-oxononanoate synthase:hypothetical protein:->->:960263..960582 320 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1040:PI1041|PI1040:PI1041:8-amino-7-oxononanoate synthase:hypothetical protein:->->:960263..960582 320 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1040:PI1041|PI1040:PI1041:8-amino-7-oxononanoate synthase:hypothetical protein:->->:960263..960582 320 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 41 End: 154 ........................................ M K D L Q S L I V C G C K S S F L F K S L K N T I R L N T S I V L I G F Y R ...................................................................................................................................................................... Protein_Len: 38 Strand: - Start: 174 End: 287 ............................................................................................................................................................................. T S I A T A L C C L F S Y I V D T L T H N M V N R V G L L F L K P Y S S C M ................................. Protein_Len: 44 Strand: - Start: 10 End: 141 ......... N I N A S I R Q Y F I F S K C D S I T H P Q L D E K K N L D R L F V M R K F V D I T K M ................................................................................................................................................................................... Protein_Len: 36 Strand: - Start: 2 End: 109 . T K L Q Y K S F D K P L I Y F V Q L R Q Y Y A T A L R R K Q K F R E F M ................................................................................................................................................................................................................... tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta 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================================================ tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.6 Tail_Score: -5.65927 Start: 44 End: 84 Full_Region: CTTTGGTAAAATATA AAAGACTTGCAATCGC TGATAGTAT GCGGTTGCAAGTCTTC TTTTTTGTTTAAATC ...........................................AAAGACTTGCAATCGCTGATAGTATGCGGTTGCAAGTCTTC............................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -12.3 Tail_Score: -4.88687 Start: 47 End: 81 Full_Region: TGGTAAAATATAAAA GACTTGCAATCGC TGATAGTAT GCGGTTGCAAGTC TTCTTTTTTGTTTAA ..............................................GACTTGCAATCGCTGATAGTATGCGGTTGCAAGTC............................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -10.1 Tail_Score: -4.89567 Start: 47 End: 81 Full_Region: ttaaacaaaaaagaa gacttgcaaccgc atactatca gcgattgcaagtc ttttatattttacca ..............................................gacttgcaaccgcatactatcagcgattgcaagtc............................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI1040:PI1041|PI1040:PI1041:8-amino-7-oxononanoate synthase:hypothetical protein:->->:960263..960582 320 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Intra-Species Hit: Count: 1 Min: 1 Max: 320 Len: 320 Subject: pint_PI1040_PI1041|8-amino-7-oxononanoate synthase:hypothetical protein|POSITIVE:POSITIVE|[960263,960582]|320 HSP 1 e-value: 0.0 bit: 634.0 Len: 320 Query Start:1 Query End:320 Subject Strand: POSITIVE Subject Start: 1 Subject End: 320 tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta tagtttttaattgatatttgctgaaatcctttggtaaaatataaaagacttgcaatcgctgatagtatgcggttgcaagtcttcttttttgtttaaatctctcaaaaataccatacgtttaaatacatctatcgttttaataggattttataggtgaaacaactttcttcttaggtgcttatggcagttgctaaacagcatagaaaagagtagataacatctgtaagggtgtgattcatcacgttcctaacacctaacaaaaatagttttggatatgatgagcacaaagaatcgagcccttacgatgcaactatgattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUUUAAUUGAUAUUUGCUGAAAUCCUUUGGUAAAAUAUAAAAGACUUGCAAUCGCUGAUAGUAUGCGGUUGCAAGUCUUCUUUUUUGUUUAAAUCUCUCAAAAAUACCAUACGUUUAAAUACAUCUAUCGUUUUAAUAGGAUUUUAUAGGUGAAACAACUUUCUUCUUAGGUGCUUAUGGCAGUUGCUAAACAGCAUAGAAAAGAGUAGAUAACAUCUGUAAGGGUGUGAUUCAUCACGUUCCUAACACCUAACAAAAAUAGUUUUGGAUAUGAUGAGCACAAAGAAUCGAGCCCUUACGAUGCAACUAUGAUUUA (((((.........((((((.(((((((((....((((((....(((((((((((((((.........)))))))))))))))......(((((((((..................)))))))))........))))))..))))))))))))))).....(((((.((((...(((((..((((....))))...))))))))).)))))......((((.(((((((((((.(((((((..(((..(((..............)))..)))..))))))))))..........)))))))))))).)))))....... (-83.21) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCAUAGUUGCAUCGUAAGGGCUCGAUUCUUUGUGCUCAUCAUAUCCAAAACUAUUUUUGUUAGGUGUUAGGAACGUGAUGAAUCACACCCUUACAGAUGUUAUCUACUCUUUUCUAUGCUGUUUAGCAACUGCCAUAAGCACCUAAGAAGAAAGUUGUUUCACCUAUAAAAUCCUAUUAAAACGAUAGAUGUAUUUAAACGUAUGGUAUUUUUGAGAGAUUUAAACAAAAAAGAAGACUUGCAACCGCAUACUAUCAGCGAUUGCAAGUCUUUUAUAUUUUACCAAAGGAUUUCAGCAAAUAUCAAUUAAAAACUA .......(((..((((((((((((...(((((.(..((.((...((((((((((....)))))...)))))...)).))..).)))))...))))))).)))))...)))..........(((((...(((((((.....................))))))).........(((((((.............((((......)))).(((((...((....))............(((((((((((((.(((.........))).)))))))))))))......))))).)))))))))))).................. (-73.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 483 249 212 220 184 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 373 266 222 124 82 pint:PI0933|5end_hypothetical_protein_865700..865930_POSITIVE 363 252 222 215 185 pint:PI1750|5end_sulfate_transporter_1672134..1672364_POSITIVE 322 90 47 152 109 pint:PI0007|5end_hypothetical_protein_6417..6647_POSITIVE 289 310 270 77 33 pint:PI0792|5end_conserved_hypothetical_protein_729068..729298_POSITIVE 289 246 201 139 92 pint:PI0020|5end_conserved_hypothetical_protein_24525..24755_POSITIVE 287 80 51 61 33 pint:PI2158|5end_glycosyl_transferase,_group_2_family_protein_2104392..2104622_POSITIVE 282 85 45 61 16 pint:PI0774|5end_phosphoserine_aminotransferase_(phosphoserine_transaminase)_709497..709727_POSITIVE 282 217 173 94 46 pint:PI0597|5end_hypothetical_protein_546626..546856_POSITIVE 281 199 152 96 52 pint:PI0749|5end_hypothetical_protein_677234..677464_POSITIVE 279 89 50 188 136 pint:PI1747|5end_membrane-bound_lytic_murein_transglycosylase_D_1667483..1667713_POSITIVE 279 89 50 61 9 pint:PI1746|5end_hypothetical_protein_1667356..1667586_POSITIVE 279 84 50 59 16 pint:PI1625|5end_conserved_hypothetical_protein;_possible_phage_transposase_1549316..1549546_POSITIVE 279 84 50 59 16 pint:PI0332|5end_conserved_hypothetical_protein_312600..312830_POSITIVE 273 83 49 65 32 pint:PI1518|5end_outer_membrane_protein_oprM_precursor,_multidrug_resistance_protein_1438922..1439152_POSITIVE 272 218 173 146 100 pint:PI0415|5end_malate_dehydrogenase_385358..385588_POSITIVE 270 213 176 174 140 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 270 213 176 135 101 pint:PI0006|5end_hypothetical_protein_7199..7429_POSITIVE 266 248 203 141 93 pint:PI1442|5end_radical-activating_enzyme_(pyruvate-formate_lyase-activating_enzyme)_1363949..1364179_POSITIVE 262 74 49 55 24 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 463 83 45 46 8 pint:PI1040|3end_8-amino-7-oxononanoate_synthase_960202..960352_POSITIVE 322 90 47 44 1 pint:PI0004|3end_hypothetical_protein_6389..6539_POSITIVE 320 254 213 42 1 pint:PI1820|3end_hypothetical_protein_1760377..1760527_POSITIVE 320 261 222 151 114 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 296 310 265 52 11 pint:PI1365|3end_conserved_hypothetical_protein;_probable_transmembrane_protein_1285675..1285825_POSITIVE 289 310 270 135 91 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 287 80 51 46 18 pint:PI2157|3end_xanthosine_triphosphate_pyrophosphatase,_HAM1_family_2104457..2104607_POSITIVE 273 83 49 36 3 pint:PI1517|3end_AcrB/AcrD_family_multidrug_resistance_protein_1438973..1439123_POSITIVE 262 197 153 92 47 pint:PI0728|3end_integrase_661508..661658_POSITIVE 261 316 279 51 4 pint:PI0791|3end_conserved_hypothetical_protein_729109..729259_POSITIVE 261 92 52 98 61 pint:PI0570|3end_exsB_protein;_possible_aluminum_resistance_protein_515395..515545_POSITIVE 258 317 281 90 51 pint:PI1066|3end_dihydrofolate_reductase_983932..984082_POSITIVE 257 80 51 48 15 pint:PI1608|3end_possible_Na+/H+_anti-porter_1536300..1536450_POSITIVE 256 82 46 39 3 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 256 80 48 143 106 pint:PI1780|3end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_1713097..1713247_POSITIVE 256 199 151 144 95 pint:PI0969|3end_30S_ribosomal_protein_S16_897261..897411_POSITIVE 253 316 273 86 45 pint:PI1046|3end_hypothetical_protein_966081..966231_POSITIVE 252 167 132 121 76 pint:PI0470|3end_50S_ribosomal_protein_L14_437813..437963_POSITIVE 249 209 166 50 1 pint:PI0076|3end_conserved_hypothetical_protein_76192..76342_POSITIVE 247 260 216 74 22 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE