Origin IGS: tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagcccctctgactatgaggggctgcatcaacgctatgctggaatagtcggcactaatcatcttcagaagacgttcagccgggaggaagaagtacggaaggaattatctgctttgttcgaggga Mask Tandem Repeat Region ================================================ tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Find is-nt database================================================ Query_seq: PI0344:PI0345|PI0344:PI0345:conserved hypothetical protein:conserved hypothetical protein:->->:319500..319624 125 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0344:PI0345|PI0344:PI0345:conserved hypothetical protein:conserved hypothetical protein:->->:319500..319624 125 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0344:PI0345|PI0344:PI0345:conserved hypothetical protein:conserved hypothetical protein:->->:319500..319624 125 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 1 End: 102 G E F L A S L E K R V E E E R S F T K Q L H N T G V I G A Y R Q H M ....................... tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca 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================================================ tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0344:PI0345|PI0344:PI0345:conserved hypothetical protein:conserved hypothetical protein:->->:319500..319624 125 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: pint_PI0344_PI0345|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[319500,319624]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca tccctcgaacaaagcagataattccttccgtacttcttcctcccggctgaacgtcttctgaagatgattagtgccgactattccagcatagcgttgatgcagcccctcatagtcagaggggctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCUCGAACAAAGCAGAUAAUUCCUUCCGUACUUCUUCCUCCCGGCUGAACGUCUUCUGAAGAUGAUUAGUGCCGACUAUUCCAGCAUAGCGUUGAUGCAGCCCCUCAUAGUCAGAGGGGCUCA .............(((...........................((((..(((((((.....))))).))...)))).......((((.....)))).))).(((((((.......)))))))... (-30.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGCCCCUCUGACUAUGAGGGGCUGCAUCAACGCUAUGCUGGAAUAGUCGGCACUAAUCAUCUUCAGAAGACGUUCAGCCGGGAGGAAGAAGUACGGAAGGAAUUAUCUGCUUUGUUCGAGGGA ((((((((((.......)))))))).)).........(.((.((((((..((((.((((..(((((.....((.(((..((....))..)))))...))))).))))..)))))))))).)).). (-37.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 120 72 196 146 pint:PI1386|5end_sugar_phosphate_isomerase_1307004..1307234_POSITIVE 332 56 21 89 43 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 329 76 34 56 6 pint:PI0362|5end_hypothetical_protein_333397..333627_POSITIVE 316 120 73 151 85 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 312 52 14 125 87 pint:PI1185|5end_hypothetical_protein_1106076..1106306_POSITIVE 312 100 51 190 123 pint:PI0927|5end_transglutaminase-related_protein_857283..857513_POSITIVE 312 118 71 77 31 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 312 120 73 180 147 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 311 60 17 171 114 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 310 100 51 134 79 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 309 118 71 82 26 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 306 120 72 80 24 pint:PI1946|5end_hypothetical_protein_1902713..1902943_POSITIVE 304 119 71 216 167 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 303 110 61 167 119 pint:PI1897|5end_conserved_hypothetical_protein_1840619..1840849_POSITIVE 301 100 55 214 162 pint:PI0767|5end_possible_TonB-dependent_receptor_701915..702145_POSITIVE 299 66 25 162 122 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 296 119 71 145 102 pint:PI1832|5end_conserved_hypothetical_protein_1773161..1773391_POSITIVE 295 77 40 231 193 pint:PI0477|5end_30S_ribosomal_protein_S5_440392..440622_POSITIVE 293 116 71 167 126 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 293 116 71 64 23 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 76 34 51 1 pint:PI0360|3end_conserved_hypothetical_protein_333472..333622_POSITIVE 321 119 76 56 2 pint:PI1706|3end_GTP-binding_protein_1623668..1623818_POSITIVE 320 87 42 132 69 pint:PI1448|3end_hypothetical_protein_1371832..1371982_POSITIVE 312 52 14 132 94 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 309 118 71 73 17 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 303 110 61 131 83 pint:PI1895|3end_penicillin-binding_protein_2_1840663..1840813_POSITIVE 296 119 71 71 28 pint:PI1831|3end_conserved_hypothetical_protein_1773167..1773317_POSITIVE 296 120 72 127 83 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 294 67 21 151 100 pint:PI0384|3end_probable_radical_SAM_domain_protein_353821..353971_POSITIVE 293 116 71 42 1 pint:PI0666|3end_chorismate_synthase_610171..610321_POSITIVE 288 78 32 53 2 pint:PI1069|3end_hypothetical_protein_988458..988608_POSITIVE 280 100 52 117 66 pint:PI0343|3end_hypothetical_protein_317920..318070_POSITIVE 279 106 62 105 50 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 279 109 63 109 56 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 278 120 72 151 96 pint:PI1947|3end_hypothetical_protein_1902865..1903015_POSITIVE 277 109 71 59 6 pint:PI1067|3end_thymidylate_synthase_984811..984961_POSITIVE 275 100 53 143 101 pint:PI0456|3end_30S_ribosomal_protein_S12_429219..429369_POSITIVE 275 93 52 151 96 pint:PI0438|3end_elongation_factor_Tu_410304..410454_POSITIVE 274 109 63 126 68 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 274 119 72 94 26 pint:PI0138|3end_hypothetical_protein_131365..131515_POSITIVE