Origin IGS: taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatagagttagatataatactaaagggcaaacattatagattttttagagtaaaatcaataatgcttgtcctttaaactttatatctgcctattagctcgtta Mask Tandem Repeat Region ================================================ taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Find is-nt database================================================ Query_seq: SMT_1241:SMT_1242|SMT_1241:SMT_1242:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1203013..1203116 104 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1241:SMT_1242|SMT_1241:SMT_1242:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1203013..1203116 104 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1241:SMT_1242|SMT_1241:SMT_1242:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1203013..1203116 104 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Predict ORF larger than 30AA ================================================ taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta 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================================================ taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -11.3 Tail_Score: -3.37912 Start: 28 End: 84 Full_Region: AGGCAGATATAAAGT TTAAAGGACAAGCATTATTGATTTT ACTCTAA AAAATCTATAATGTTTGCCCTTTAG TATTATATCTAACTC ...........................TTAAAGGACAAGCATTATTGATTTTACTCTAAAAAATCTATAATGTTTGCCCTTTAG.................... TransTerm Strand: + Conf: 100 HP_score: -12.6 Tail_Score: -2.62265 Start: 29 End: 83 Full_Region: GGCAGATATAAAGTT TAAAGGACAAGCATTATTGATTTT ACTCTAA AAAATCTATAATGTTTGCCCTTTA GTATTATATCTAACT ............................TAAAGGACAAGCATTATTGATTTTACTCTAAAAAATCTATAATGTTTGCCCTTTA..................... TransTerm Strand: + Conf: 82 HP_score: -9.0 Tail_Score: -3.99878 Start: 33 End: 79 Full_Region: GATATAAAGTTTAAA GGACAAGCATTATTGATTTT ACTCTAA AAAATCTATAATGTTTGCCC TTTAGTATTATATCT ................................GGACAAGCATTATTGATTTTACTCTAAAAAATCTATAATGTTTGCCC......................... TransTerm Strand: - Conf: 80 HP_score: -9.0 Tail_Score: -3.75418 Start: 33 End: 79 Full_Region: agatataatactaaa gggcaaacattatagatttt ttagagt aaaatcaataatgcttgtcc tttaaactttatatc ................................gggcaaacattatagattttttagagtaaaatcaataatgcttgtcc......................... Find igs database================================================ Query_seq: SMT_1241:SMT_1242|SMT_1241:SMT_1242:hypothetical protein:hypothetical protein predicted by Glimmer/Critica:-><-:1203013..1203116 104 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: smit_SMT_1241_SMT_1242|hypothetical protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[1203013,1203116]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta taacgagctaataggcagatataaagtttaaaggacaagcattattgattttactctaaaaaatctataatgtttgccctttagtattatatctaactctatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGAGCUAAUAGGCAGAUAUAAAGUUUAAAGGACAAGCAUUAUUGAUUUUACUCUAAAAAAUCUAUAAUGUUUGCCCUUUAGUAUUAUAUCUAACUCUAUUA ........(((((((.((((((((...(((((((.((((((((((.((((((.......)))))).)))))))))).)))))))..))))))))...))))))) (-31.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAGAGUUAGAUAUAAUACUAAAGGGCAAACAUUAUAGAUUUUUUAGAGUAAAAUCAAUAAUGCUUGUCCUUUAAACUUUAUAUCUGCCUAUUAGCUCGUUA ((((((.((.((((((((...((((((((((.((((((.((((((.......)))))).)))))).))))))))))....))))))))))))))))........ (-33.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 222 80 31 103 54 smit:SMT_1507|5end_purine_nucleoside_phosphorylase_1491011..1491241_NEGATIVE 211 78 32 81 34 smit:SMT_400|5end_hypothetical_protein_329090..329320_POSITIVE 202 80 36 206 158 smit:SMT_265|5end_DNA-binding_protein_204073..204303_NEGATIVE 200 48 5 184 155 smit:SMT_1573|5end_MutT/NUDIX_family_protein_1566413..1566643_POSITIVE 196 50 5 48 1 smit:SMT_1978|5end_hypothetical_protein_1909566..1909796_NEGATIVE 195 89 44 192 144 smit:SMT_1949|5end_IS1381_transposase_protein_B_1883518..1883748_POSITIVE 192 70 22 181 134 smit:SMT_1776|5end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_1752407..1752637_NEGATIVE 189 95 55 133 95 smit:SMT_1498|5end_transcriptional_regulator,_LytR_family_1481958..1482188_POSITIVE 184 100 54 88 50 smit:SMT_357|5end_tRNA_(guanine-N7-)-methyltransferase_293185..293415_POSITIVE 182 95 71 33 10 smit:SMT_1585|5end_phosphopantetheine_adenylyltransferase_1575242..1575472_POSITIVE 182 88 54 35 1 smit:SMT_1515|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1497489..1497719_NEGATIVE 182 78 36 211 163 smit:SMT_690|5end_pyrimidine_regulatory_protein_602168..602398_NEGATIVE 181 41 3 57 23 smit:SMT_1579|5end_ABC-type_sugar_transport_system,_periplasmic_component_1571890..1572120_POSITIVE 178 80 32 105 56 smit:SMT_2078|5end_acetyl_xylan_esterase,_putative_1979571..1979801_POSITIVE 178 42 6 102 71 smit:SMT_1150|5end_hypothetical_protein_1094803..1095033_NEGATIVE 174 96 52 52 4 smit:SMT_363|5end_K02519_translation_initiation_factor_IF-2_298539..298769_POSITIVE 172 50 5 75 25 smit:SMT_1275|5end_rod_shape-determining_protein_MreC_1238594..1238824_POSITIVE 172 79 33 109 52 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 170 41 4 87 58 smit:SMT_1872|5end_K03217_preprotein_translocase_YidC_subunit_1831764..1831994_NEGATIVE 169 40 14 34 11 smit:SMT_204|5end_K02012_iron(III)_transport_system_substrate-binding_protein_135971..136201_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 80 31 59 10 smit:SMT_1241|3end_hypothetical_protein_1202952..1203102_POSITIVE 222 80 31 106 57 smit:SMT_1508|3end_hypothetical_protein_1491008..1491158_NEGATIVE 211 78 32 67 20 smit:SMT_399|3end_cytochrome_c-type_biogenesis_protein_CcdA_329156..329306_POSITIVE 205 57 11 101 39 smit:SMT_1777|3end_hypothetical_protein_1753378..1753528_POSITIVE 192 44 3 59 19 smit:SMT_258|3end_alpha-glucosidase,_family_31_of_glycosyl_hydrolase_197342..197492_POSITIVE 189 95 55 125 87 smit:SMT_1497|3end_acetyltransferase,_GNAT_family_1482030..1482180_POSITIVE 184 100 54 91 53 smit:SMT_356|3end_hypothetical_protein_293268..293418_POSITIVE 182 95 71 43 20 smit:SMT_1584|3end_methyltransferase,_putative_1575332..1575482_POSITIVE 182 88 54 35 1 smit:SMT_1516|3end_K02029_polar_amino_acid_transport_system_permease_protein_1497489..1497639_NEGATIVE 176 58 17 98 58 smit:SMT_1475|3end_K02004_1458661..1458811_POSITIVE 172 79 33 125 68 smit:SMT_950|3end_UDP-glucose_4-epimerase_897677..897827_NEGATIVE 165 35 4 70 39 smit:SMT_1299|3end_MutT/NUDIX_family_protein_1262572..1262722_POSITIVE 165 39 6 55 19 smit:SMT_771|3end_spermidine/putrescine_transport_system_permease_protein_PotB_681356..681506_NEGATIVE 164 58 11 116 66 smit:SMT_974|3end_DNA-binding_response_regulator_922170..922320_NEGATIVE 163 61 26 116 80 smit:SMT_1066|3end_holo-(acyl_carrier_protein)_synthase_1005859..1006009_POSITIVE 163 45 4 94 53 smit:SMT_702|3end_hypothetical_protein_611946..612096_NEGATIVE 162 42 1 98 47 smit:SMT_1321|3end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1291458..1291608_POSITIVE 161 40 5 57 5 smit:SMT_862|3end_hypothetical_protein_predicted_by_Glimmer/Critica_809191..809341_POSITIVE 161 43 4 64 32 smit:SMT_484|3end_hypothetical_protein_419659..419809_NEGATIVE 160 56 25 36 3 smit:SMT_1485|3end_exodeoxyribonuclease_1465169..1465319_NEGATIVE