Origin IGS: tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngatttttttcccttttctcgtcttgatttatagtagtcaatctaaaaaaatcaagcggttagagaagaggttaaaggtaatcgaaagaaaagagaaaggaaatatagatatgtcaagattattgcaagaattaatttgggaaaaatccaacaatcgttggacaagtgtttggaacatctttatgggaagtt .........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 aacttcccataaagatgttccaaacacttgtccaacgattgttggatttttcccaaattaattcttgcaataatcttgacatatctatatttcctttctcttttctttcgattacctttaacctcttctctaaccgcttgatttttttagattgactactataaatcaagacgagaaaagggaaaaaaatcnnnnnttaattaattaannnnngctggaaaggtgttggacttggaaggcaggtttgaaataatctgtttgcaacggaaaaccttcgtctctcaactaaaaggactcaggctgaaaaggtcccccagaccttttcactccgtagggga Mask Tandem Repeat Region ================================================ tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngatttttttcccttttctcgtcttgatttatagtagtcaatctaaaaaaatcaagcggttagagaagaggttaaaggtaatcgaaagaaaagagaaaggaaatatagatatgtcaagattattgcaagaattaatttgggaaaaatccaacaatcgttggacaagtgtttggaacatctttatgggaagtt Find is-nt database================================================ Query_seq: SMT_1788:SMT_1789|SMT_1788:SMT_1789:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:1765120..1765457 338 tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngatttttttcccttttctcgtcttgatttatagtagtcaatctaaaaaaatcaagcggttagagaagaggttaaaggtaatcgaaagaaaagagaaaggaaatatagatatgtcaagattattgcaagaattaatttgggaaaaatccaacaatcgttggacaagtgtttggaacatctttatgggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1788:SMT_1789|SMT_1788:SMT_1789:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:1765120..1765457 338 tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngatttttttcccttttctcgtcttgatttatagtagtcaatctaaaaaaatcaagcggttagagaagaggttaaaggtaatcgaaagaaaagagaaaggaaatatagatatgtcaagattattgcaagaattaatttgggaaaaatccaacaatcgttggacaagtgtttggaacatctttatgggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1788:SMT_1789|SMT_1788:SMT_1789:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:1765120..1765457 338 tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngatttttttcccttttctcgtcttgatttatagtagtcaatctaaaaaaatcaagcggttagagaagaggttaaaggtaatcgaaagaaaagagaaaggaaatatagatatgtcaagattattgcaagaattaatttgggaaaaatccaacaatcgttggacaagtgtttggaacatctttatgggaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 152 Max: 338 Len: 187 Subject: UniRef90_Q97ND0 Cluster: Hypothetical protein; n=4; Streptococcus pneumoniae|Rep: Hypothetical protein - Streptococcus pneumoniae HSP 1 e-value: 5.0E-9 bit: 60.1 Len: 132 Query Start:152 Query End:283 Subject Strand: null Subject Start: 57 Subject End: 100 ....................................................................................................................................................... F F P F L V L I Y S S Q S K K I K R L E K R L K V I E R K E K G N I D M S R L L Q E L I ....................................................... ....................................................................................................................................................... F I L F M I F F Y S N N S K K I K K L E N K I K R L E R K E K G N A E M S R L L Q E M I ....................................................... HSP 2 e-value: 5.0E-9 bit: 22.3 Len: 54 Query Start:285 Query End:338 Subject Strand: null Subject Start: 101 Subject End: 118 ............................................................................................................................................................................................................................................................................................ G K N P T I V G Q V F G T S L W E V ............................................................................................................................................................................................................................................................................................ G K E P I I T G V Y I G P D N W E V tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 149 End: 337 .................................................................................................................................................... M F F P F L V L I Y S S Q S K K I K R L E K R L K V I E R K E K G N I D M S R L L Q E L I W E K S N N R W T S V W N I F . Protein_Len: 37 Strand: - Start: 201 End: 311 ........................................................................................................................................................................................................ A T L S S T L P L R F F L S L F Y L Y T L I I A L I L K P F I W C D N S M ........................... Protein_Len: 48 Strand: - Start: 187 End: 330 .......................................................................................................................................................................................... D L F I L R N S F L N F T I S L F S F P F I S I D L N N C S N I Q S F D L L R Q V L T Q F M K M ........ Protein_Len: 38 Strand: - Start: 3 End: 116 .. G V S H F P R P S R K L R L G K L Q S V F T K R Q L C I I E F R G E L D L M .............................................................................................................................................................................................................................. tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1788:SMT_1789|SMT_1788:SMT_1789:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-->:1765120..1765457 338 tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaannnnngattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: smit_SMT_1788_SMT_1789|hypothetical protein predicted by Glimmer/Critica:hypothetical protein|NEGATIVE:POSITIVE|[1765120,1765457]|338 HSP 1 e-value: 7.0E-66 bit: 252.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaa.................................................................................................................................................................................................... tcccctacggagtgaaaaggtctgggggaccttttcagcctgagtccttttagttgagagacgaaggttttccgttgcaaacagattatttcaaacctgccttccaagtccaacacctttccagcnnnnnttaattaattaa.................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCCCUACGGAGUGAAAAGGUCUGGGGGACCUUUUCAGCCUGAGUCCUUUUAGUUGAGAGACGAAGGUUUUCCGUUGCAAACAGAUUAUUUCAAACCUGCCUUCCAAGUCCAACACCUUUCCAGCNNNNNUUAAUUAAUUAA ......((((((.(((((((((.....))))))))).((((..((((((......))).)))..)))).)))))).(((....((.....)).....))).......................................... (-30.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNGCUGGAAAGGUGUUGGACUUGGAAGGCAGGUUUGAAAUAAUCUGUUUGCAACGGAAAACCUUCGUCUCUCAACUAAAAGGACUCAGGCUGAAAAGGUCCCCCAGACCUUUUCACUCCGUAGGGGA .................((.....((((.(..((((((.....))))))..)....))))....)).(((((...(((..(((.((........)))))..))).((((((((((.....)))))))))).)))))...... (-36.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1032 50 1 141 92 smit:SMT_1788|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1765029..1765259_NEGATIVE 1032 50 1 141 92 smit:SMT_1197|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1158751..1158981_NEGATIVE 503 26 1 231 206 smit:SMT_1787|5end_phosphoribosylformylglycinamidine_synthase_1764915..1765145_NEGATIVE 503 26 1 231 206 smit:SMT_1196|5end_phosphoribosylformylglycinamidine_synthase_1158637..1158867_NEGATIVE 501 44 9 141 106 smit:SMT_864|5end_K07485_transposase_814322..814552_POSITIVE 401 70 25 66 22 smit:SMT_1123|5end_hypothetical_protein_1059292..1059522_POSITIVE 326 67 22 189 152 smit:SMT_110|5end_alpha-L-fucosidase_57445..57675_POSITIVE 320 78 37 204 158 smit:SMT_1855|5end_K03650_tRNA_modification_GTPase_1819711..1819941_POSITIVE 317 67 23 191 151 smit:SMT_131|5end_phosphatase,_putative_83663..83893_NEGATIVE 316 140 97 175 132 smit:SMT_1943|5end_alpha/beta_hydrolase_fold_1878968..1879198_NEGATIVE 315 42 1 193 152 smit:SMT_1124|5end_pyrrolidone-carboxylate_peptidase_1060869..1061099_NEGATIVE 311 108 61 71 15 smit:SMT_912|5end_fructokinase_863620..863850_NEGATIVE 302 60 13 193 139 smit:SMT_1924|5end_isoleucyl-tRNA_synthetase_1866188..1866418_POSITIVE 297 50 1 103 50 smit:SMT_871|5end_K03311_branched-chain_amino_acid:cation_transporter,_LIVCS_family_820160..820390_NEGATIVE 297 50 1 103 50 smit:SMT_386|5end_branched-chain_amino_acid_transport_system_II_carrier_protein_320353..320583_POSITIVE 295 117 71 61 22 smit:SMT_1194|5end_phosphoribosylformylglycinamidine_cyclo-ligase_1153171..1153401_NEGATIVE 294 67 22 218 169 smit:SMT_346|5end_K01992_ABC-2_type_transport_system_permease_protein_284720..284950_POSITIVE 285 40 1 188 139 smit:SMT_2051|5end_enoyl-CoA_hydratase_1960639..1960869_NEGATIVE 283 110 61 113 59 smit:SMT_1021|5end_K05846_osmoprotectant_transport_system_permease_protein_957999..958229_NEGATIVE 281 48 1 176 125 smit:SMT_367|5end_hypothetical_protein_302318..302548_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1032 50 1 55 6 smit:SMT_1198|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1158837..1158987_NEGATIVE 322 60 11 125 73 smit:SMT_1681|3end_D-alanine-activating_enzyme_1665052..1665202_POSITIVE 316 140 97 68 25 smit:SMT_1944|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1879075..1879225_NEGATIVE 315 42 1 87 46 smit:SMT_1125|3end_K08987_putative_membrane_protein_1060975..1061125_NEGATIVE 305 48 1 87 44 smit:SMT_225|3end_pullulanase_159666..159816_NEGATIVE 303 42 8 149 110 smit:SMT_1614|3end_K08998_hypothetical_protein_1601652..1601802_POSITIVE 293 60 12 66 17 smit:SMT_397|3end_NAD(+)_synthetase_327423..327573_POSITIVE 289 70 24 101 55 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 289 70 24 101 55 smit:SMT_1573|3end_MutT/NUDIX_family_protein_1566960..1567110_POSITIVE 289 125 81 147 104 smit:SMT_461|3end_mannose-6-phosphate_isomerase_400403..400553_POSITIVE 283 110 61 120 66 smit:SMT_1022|3end_glycine_betaine_transport_ATP-binding_protein_957992..958142_NEGATIVE 269 78 32 120 64 smit:SMT_1131|3end_threonine_synthase_1065271..1065421_NEGATIVE 268 60 15 75 31 smit:SMT_431|3end_UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase_373631..373781_POSITIVE 267 65 23 114 64 smit:SMT_640|3end_PTS_system,_lactose-specific_IIBC_component_545099..545249_NEGATIVE 264 46 1 142 94 smit:SMT_1631|3end_phosphopantothenoylcysteine_synthase/decarboxylase_1618204..1618354_NEGATIVE 264 78 37 128 97 smit:SMT_1503|3end_SSU_ribosomal_protein_S20P_1487231..1487381_POSITIVE 259 79 45 53 17 smit:SMT_737|3end_hypothetical_protein_642270..642420_NEGATIVE 256 47 2 50 4 smit:SMT_2045|3end_K+_transport_system,_NAD-binding_component_1956758..1956908_POSITIVE 256 47 2 118 72 smit:SMT_2044|3end_transcriptional_activator_TipA,_putative_1955274..1955424_NEGATIVE 256 47 2 118 72 smit:SMT_2026|3end_K03466_DNA_segregation_ATPase_FtsK/SpoIIIE,_S-DNA-T_family_1941905..1942055_NEGATIVE