Origin IGS: ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca .........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 tgtactgggattaaagatgctaagagctacaggattgtctaagcttgctagatagagattactaatggccctatcttttaaggcttcctgaatatcattaaagactgtttttccttctaaaacaggacttgccttacaaatttcttcattcgttcagcataaaaatcctgtctcgaatcatttgannnnnttaattaattaannnnngatatacattgagcgtataaccgtattttttctattcgttcatgagaaatcgttcttctaatagcattgtcacatcttctctccaaatgagcgggaagaagctactactgg Mask Tandem Repeat Region ================================================ ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Find is-nt database================================================ Query_seq: SMT_1936:SMT_1937|SMT_1936:SMT_1937:hypothetical protein predicted by Glimmer/Critica:glycosyl transferase, family 2:->->:1874250..1874567 318 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1936:SMT_1937|SMT_1936:SMT_1937:hypothetical protein predicted by Glimmer/Critica:glycosyl transferase, family 2:->->:1874250..1874567 318 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1936:SMT_1937|SMT_1936:SMT_1937:hypothetical protein predicted by Glimmer/Critica:glycosyl transferase, family 2:->->:1874250..1874567 318 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 26 End: 121 ......................... M E R R C D N A I R R T I S H E R I E K I R L Y A Q C I S X X N ..................................................................................................................................................................................................... Protein_Len: 47 Strand: + Start: 178 End: 318 ................................................................................................................................................................................. M C K A S P V L E G K T V F N D I Q E A L K D R A I S N L Y L A S L D N P V A L S I F N P S T Protein_Len: 36 Strand: - Start: 120 End: 227 ....................................................................................................................... N I L X X L H N S V P N K H Q V F S S I Q L A L G T K S P F V T K L S M ........................................................................................... ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca 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================================================ ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1936:SMT_1937|SMT_1936:SMT_1937:hypothetical protein predicted by Glimmer/Critica:glycosyl transferase, family 2:->->:1874250..1874567 318 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Intra-Species Hit: Count: 1 Min: 1 Max: 318 Len: 318 Subject: smit_SMT_1936_SMT_1937|hypothetical protein predicted by Glimmer/Critica:glycosyl transferase, family 2|POSITIVE:POSITIVE|[1874250,1874567]|318 HSP 1 e-value: 1.0E-162 bit: 571.0 Len: 318 Query Start:1 Query End:318 Subject Strand: POSITIVE Subject Start: 1 Subject End: 318 ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca ccagtagtagcttcttcccgctcatttggagagaagatgtgacaatgctattagaagaacgatttctcatgaacgaatagaaaaaatacggttatacgctcaatgtatatcnnnnnttaattaattaannnnntcaaatgattcgagacaggatttttatgctgaacgaatgaagaaatttgtaaggcaagtcctgttttagaaggaaaaacagtctttaatgatattcaggaagccttaaaagatagggccattagtaatctctatctagcaagcttagacaatcctgtagctcttagcatctttaatcccagtaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAGUAGUAGCUUCUUCCCGCUCAUUUGGAGAGAAGAUGUGACAAUGCUAUUAGAAGAACGAUUUCUCAUGAACGAAUAGAAAAAAUACGGUUAUACGCUCAAUGUAUAUCNNNNNUUAAUUAAUUAANNNNNUCAAAUGAUUCGAGACAGGAUUUUUAUGCUGAACGAAUGAAGAAAUUUGUAAGGCAAGUCCUGUUUUAGAAGGAAAAACAGUCUUUAAUGAUAUUCAGGAAGCCUUAAAAGAUAGGGCCAUUAGUAAUCUCUAUCUAGCAAGCUUAGACAAUCCUGUAGCUCUUAGCAUCUUUAAUCCCAGUACA ...(((..(((........))).....(((..((((((((.....(((((.((((.....((((.((.(((...(((((.............((((((.....))))))..............(((((.............((((((((((((((....((((..((((((......))))))..))))))))))))))).))).............)))))..))))).....((((((.....))))))))).)).))))))))..))))).((((((......))).))).....))))))))..)))...))). (-65.47) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUACUGGGAUUAAAGAUGCUAAGAGCUACAGGAUUGUCUAAGCUUGCUAGAUAGAGAUUACUAAUGGCCCUAUCUUUUAAGGCUUCCUGAAUAUCAUUAAAGACUGUUUUUCCUUCUAAAACAGGACUUGCCUUACAAAUUUCUUCAUUCGUUCAGCAUAAAAAUCCUGUCUCGAAUCAUUUGANNNNNUUAAUUAAUUAANNNNNGAUAUACAUUGAGCGUAUAACCGUAUUUUUUCUAUUCGUUCAUGAGAAAUCGUUCUUCUAAUAGCAUUGUCACAUCUUCUCUCCAAAUGAGCGGGAAGAAGCUACUACUGG .(((.(((.......((((((((((((..(((((((....((((((...((((((.(....(....).).))))))....)))))).((((((...........(((((((.......)))))))...(((.....)))............))))))......)))))))((((...((....))...............................((((((.(((.............))).)))))).))))....))))).....))))))).......(((((..((........))..)))))))).)))... (-59.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 250 205 58 16 smit:SMT_2053|5end_hypothetical_membrane_associated_protein_1964422..1964652_NEGATIVE 278 184 141 107 58 smit:SMT_1923|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1866021..1866251_POSITIVE 278 42 4 227 177 smit:SMT_177|5end_K02878_large_subunit_ribosomal_protein_L16_118738..118968_POSITIVE 274 48 1 194 147 smit:SMT_1986|5end_mercuric_reductase_1914843..1915073_POSITIVE 274 48 1 227 180 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 271 32 1 144 107 smit:SMT_1627|5end_hypothetical_protein_1616415..1616645_NEGATIVE 271 32 1 162 126 smit:SMT_190|5end_preprotein_translocase,_SecY_subunit_124285..124515_POSITIVE 270 303 262 206 163 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 268 44 1 213 161 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 268 39 1 192 149 smit:SMT_1636|5end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1622568..1622798_POSITIVE 266 297 252 134 89 smit:SMT_1459|5end_K02037_phosphate_transport_system_permease_protein_1440522..1440752_POSITIVE 264 293 260 151 119 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 261 50 6 230 180 smit:SMT_1630|5end_hypothetical_protein_1617291..1617521_POSITIVE 261 50 6 230 180 smit:SMT_1241|5end_hypothetical_protein_1201040..1201270_POSITIVE 261 48 1 54 3 smit:SMT_259|5end_dipeptide/tripeptide_permease_197629..197859_POSITIVE 260 48 3 229 171 smit:SMT_1784|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1760755..1760985_POSITIVE 254 50 1 180 118 smit:SMT_1711|5end_Xaa-Pro_dipeptidase_1697494..1697724_NEGATIVE 251 21 1 227 202 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 251 289 242 67 14 smit:SMT_813|5end_acetyltransferase,_GNAT_family_722322..722552_NEGATIVE 250 29 1 224 193 smit:SMT_2045|5end_K+_transport_system,_NAD-binding_component_1956139..1956369_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 67 22 78 25 smit:SMT_1875|3end_hypothetical_protein_1833422..1833572_POSITIVE 304 303 263 129 87 smit:SMT_1633|3end_formate--tetrahydrofolate_ligase_1620990..1621140_POSITIVE 271 32 1 149 113 smit:SMT_189|3end_50S_ribosomal_protein_L15_124352..124502_POSITIVE 266 297 252 134 89 smit:SMT_1458|3end_K02040_phosphate_transport_system_substrate-binding_protein_1440602..1440752_POSITIVE 264 293 260 141 109 smit:SMT_946|3end_hypothetical_protein_895918..896068_NEGATIVE 256 37 1 134 97 smit:SMT_1265|3end_hypothetical_protein_1230872..1231022_NEGATIVE 252 48 3 55 11 smit:SMT_1324|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1294036..1294186_POSITIVE 252 35 1 151 111 smit:SMT_161|3end_putative_folyl-polyglutamate_synthetase_106586..106736_POSITIVE 251 289 242 57 4 smit:SMT_814|3end_UDP-N-acetyl_muramate-alanine_ligase_722332..722482_NEGATIVE 250 42 1 59 19 smit:SMT_1866|3end_extramembranal_protein_1827939..1828089_POSITIVE 250 224 184 42 1 smit:SMT_1117|3end_competence_protein_CglA_1053762..1053912_NEGATIVE 245 289 252 83 38 smit:SMT_1104|3end_K06346_spoIIIJ-associated_protein_1045795..1045945_NEGATIVE 244 278 231 128 85 smit:SMT_2020|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1937914..1938064_POSITIVE 243 294 262 57 23 smit:SMT_2004|3end_K00783_hypothetical_protein_1925489..1925639_POSITIVE 243 56 11 68 25 smit:SMT_1213|3end_fatty_acid/phospholipid_synthesis_protein_PlsX_1171663..1171813_NEGATIVE 243 294 262 57 23 smit:SMT_86|3end_K00783_hypothetical_protein_17035..17185_NEGATIVE 240 299 254 65 8 smit:SMT_951|3end_oxidoreductase,_DadA_family_protein/D-amino_acid_oxidase_898995..899145_NEGATIVE 240 50 10 51 10 smit:SMT_366|3end_hypothetical_protein_302398..302548_POSITIVE 239 299 257 61 16 smit:SMT_451|3end_thiamine-phosphate_pyrophosphorylase_389647..389797_POSITIVE 238 303 261 77 17 smit:SMT_1738|3end_peptidyl-prolyl_cis-trans_isomerase_1721341..1721491_POSITIVE