Origin IGS: tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc .........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 gagtccgatagggctcttttttctgtgataattttatcaaaaagtatttgttatactttttttaatttagatttatcttgggggtttgggggcgtgccaccacattttcatatcgtttgttttttaaaccgtgaggtttgaaatggcaggcgatatgatttttgggatattgtggacacaatatctgagctcgcaaagaccgaacaagaagcaagtgaggtctttaggaagcgtactgacaatgtgaggtagacttacactgtcagacaagtagaatgttgaagggatatcaga Mask Tandem Repeat Region ================================================ tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Find is-nt database================================================ Query_seq: SMT_723:SMT_724|SMT_723:SMT_724:hypothetical protein:hypothetical protein:<-<-:629566..629859 294 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_723:SMT_724|SMT_723:SMT_724:hypothetical protein:hypothetical protein:<-<-:629566..629859 294 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_723:SMT_724|SMT_723:SMT_724:hypothetical protein:hypothetical protein:<-<-:629566..629859 294 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Predict ORF larger than 30AA ================================================ Protein_Len: 54 Strand: + Start: 7 End: 168 ...... M P S T F Y L S D S V S L P H I V S T L P K D L T C F L F G L C E L R Y C V H N I P K I I S P A I S N L T V .............................................................................................................................. Protein_Len: 44 Strand: + Start: 53 End: 184 .................................................... M S V R F L K T S L A S C S V F A S S D I V S T I S Q K S Y R L P F Q T S R F K K Q T I .............................................................................................................. Protein_Len: 50 Strand: + Start: 81 End: 230 ................................................................................ M L L V R S L R A Q I L C P Q Y P K N H I A C H F K P H G L K N K R Y E N V V A R P Q T P K I N L N ................................................................ Protein_Len: 38 Strand: - Start: 157 End: 270 ............................................................................................................................................................ V E R N L F C V I H F H P P V G G F G W S L D L N F F T Y C I S K S L I I M ........................ Protein_Len: 38 Strand: - Start: 51 End: 164 .................................................. M T L V S G L S R V Q K K N P R Q S S L Y Q T W L I G F I M D G A M E F R M .................................................................................................................................. tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc 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================================================ tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 89 HP_score: -10.1 Tail_Score: -4.67556 Start: 137 End: 187 Full_Region: cgtgccaccacattt tcatatcgtttgttttttaaacc gtga ggtttgaaatggcaggcgatatga tttttgggatattgt ........................................................................................................................................tcatatcgtttgttttttaaaccgtgaggtttgaaatggcaggcgatatga........................................................................................................... Find igs database================================================ Query_seq: SMT_723:SMT_724|SMT_723:SMT_724:hypothetical protein:hypothetical protein:<-<-:629566..629859 294 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Intra-Species Hit: Count: 1 Min: 1 Max: 294 Len: 294 Subject: smit_SMT_723_SMT_724|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[629566,629859]|294 HSP 1 e-value: 1.0E-153 bit: 541.0 Len: 294 Query Start:1 Query End:294 Subject Strand: POSITIVE Subject Start: 1 Subject End: 294 tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattnnnnnnngtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc tctgatatcccttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcctgccatttcaaacctcacggtttaaaaaacaaacgatatgaaaatgtggtggcacgcccccaaacccccaagataaatctaaattaaaaaaagtataacaaatactttttgataaaattatcacagaaaaaagagccctatcggactc Inter-species Hit: Count: 2 Min: 12 Max: 146 Len: 135 Subject: NC_008533_SPD_0933_SPD_0934|hypothetical protein:Tn5252, Orf 10 protein|POSITIVE:POSITIVE|[944836,945666]|831 HSP 1 e-value: 3.0E-49 bit: 196.0 Len: 135 Query Start:12 Query End:146 Subject Strand: NEGATIVE Subject Start: 686 Subject End: 820 ...........ttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcc.................................................................................................................................................... ...........ttcaacattatacttgtctgacaatgtaaggctgcctcacattgtcagtacgattcctaaagacctcagtctctccttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcc.................................................................................................................................................... Subject: NC_003098_spr0954_spr0955|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[937305,938135]|831 HSP 1 e-value: 3.0E-49 bit: 196.0 Len: 135 Query Start:12 Query End:146 Subject Strand: NEGATIVE Subject Start: 686 Subject End: 820 ...........ttcaacattctacttgtctgacagtgtaagtctacctcacattgtcagtacgcttcctaaagacctcacttgcttcttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcc.................................................................................................................................................... ...........ttcaacattatacttgtctgacaatgtaaggctgcctcacattgtcagtacgattcctaaagacctcagtctctccttgttcggtctttgcgagctcagatattgtgtccacaatatcccaaaaatcatatcgcc.................................................................................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAACAUUCUACUUGUCUGACAGUGUAAGUCUACCUCACAUUGUCAGUACGCUUCCUAAAGACCUCACUUGCUUCUUGUUCGGUCUUUGCGAGCUCAGAUAUUGUGUCCACAAUAUCCCAAAAAUCAUAUCGCC .................((((((((((.((.....)).))))))))))...((((.(.(((((((..((.........))..)))))))).))))...((((((((....))))))))................. (-34.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCGAUAUGAUUUUUGGGAUAUUGUGGACACAAUAUCUGAGCUCGCAAAGACCGAACAAGAAGCAAGUGAGGUCUUUAGGAAGCGUACUGACAAUGUGAGGUAGACUUACACUGUCAGACAAGUAGAAUGUUGAA ..((((((....((((.((((((((....))))))))...(((..((((((((..((.........))..))))))).)..)))...((((((.((((((.....)))))).)))))).))))....)))))).. (-43.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 989 100 51 202 153 smit:SMT_723|5end_hypothetical_protein_629475..629705_NEGATIVE 363 110 61 213 155 smit:SMT_1880|5end_hypothetical_protein_1836854..1837084_POSITIVE 361 95 51 176 130 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 350 100 51 209 155 smit:SMT_1717|5end_DNA-3-methyladenine_glycosylase_I_1704274..1704504_NEGATIVE 325 99 52 199 151 smit:SMT_877|5end_hypothetical_protein_824412..824642_NEGATIVE 324 99 51 144 83 smit:SMT_331|5end_endo-beta-N-acetylglucosaminidase_266416..266646_POSITIVE 322 110 64 57 10 smit:SMT_1529|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1512880..1513110_NEGATIVE 307 89 42 73 11 smit:SMT_1555|5end_hypothetical_protein_1541014..1541244_NEGATIVE 306 97 57 228 180 smit:SMT_1159|5end_hypothetical_protein_1104544..1104774_NEGATIVE 305 86 51 231 198 smit:SMT_304|5end_hypothetical_protein_246580..246810_POSITIVE 294 99 51 224 161 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 291 109 64 147 101 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 290 97 53 131 77 smit:SMT_771|5end_spermidine/putrescine_transport_system_permease_protein_PotB_682183..682413_NEGATIVE 290 99 53 51 7 smit:SMT_351|5end_hypothetical_protein_290289..290519_POSITIVE 286 97 54 100 44 smit:SMT_1388|5end_hypothetical_protein_1365214..1365444_POSITIVE 285 96 51 117 71 smit:SMT_446|5end_ABC-type_cobalt_transport_system,_ATPase_component_384870..385100_POSITIVE 283 107 64 141 99 smit:SMT_1531|5end_hypothetical_protein_1515997..1516227_NEGATIVE 283 100 51 114 44 smit:SMT_896|5end_hypothetical_protein_844003..844233_NEGATIVE 280 98 55 90 47 smit:SMT_603|5end_hypothetical_protein_517961..518191_POSITIVE 279 69 25 56 13 smit:SMT_460|5end_6-phospho-beta-glucosidase_397819..398049_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 440 99 51 60 2 smit:SMT_780|3end_peptidase_family_U32_688752..688902_NEGATIVE 315 95 51 128 85 smit:SMT_264|3end_hypothetical_protein_203321..203471_NEGATIVE 289 77 35 63 8 smit:SMT_801|3end_glycyl-tRNA_synthetase_alpha_chain_709892..710042_NEGATIVE 285 96 51 116 70 smit:SMT_445|3end_hypothetical_protein_384949..385099_POSITIVE 284 92 57 148 104 smit:SMT_1160|3end_K03152_4-methyl-5(b-hydroxyethyl)-thiazole_monophosphate_biosynthesis_1104620..1104770_NEGATIVE 283 107 64 144 102 smit:SMT_1532|3end_hypothetical_protein_1515994..1516144_NEGATIVE 283 100 51 102 32 smit:SMT_897|3end_serine_O-acetyltransferase_844015..844165_NEGATIVE 279 54 17 53 6 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 279 110 63 136 93 smit:SMT_1443|3end_23S_rRNA_m(5)U_1939_methyltransferase_1426503..1426653_NEGATIVE 278 97 64 146 114 smit:SMT_1529|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1512776..1512926_NEGATIVE 269 110 65 123 80 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 268 83 44 57 25 smit:SMT_163|3end_cardiolipin_synthetase_108936..109086_POSITIVE 264 94 51 135 80 smit:SMT_1204|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1164595..1164745_NEGATIVE 263 120 75 140 81 smit:SMT_1034|3end_K05896_segregation_and_condensation_protein_A_976768..976918_NEGATIVE 263 110 65 82 29 smit:SMT_925|3end_DNA-directed_RNA_polymerase_omega_chain_879969..880119_NEGATIVE 262 110 61 60 10 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 259 128 84 44 6 smit:SMT_219|3end_phosphatidate_cytidylyltransferase_151805..151955_POSITIVE 257 89 45 87 41 smit:SMT_1814|3end_amino_acid_transporter_1788640..1788790_POSITIVE 256 107 64 75 19 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 256 110 61 121 75 smit:SMT_1487|3end_hypothetical_protein_1467076..1467226_POSITIVE