Origin IGS: gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcttcctcccatttcctcctctccaaggagggactctcctccccaaaaagcgttgcttttttctttgcaatcaattttagaactgtatacttggtattccgttcgacctattacctattggtcggc Mask Tandem Repeat Region ================================================ gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Find is-nt database================================================ Query_seq: PG0649:PG0650|PG0649:PG0650:hypothetical protein:hypothetical protein:-><-:702545..702670 126 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0649:PG0650|PG0649:PG0650:hypothetical protein:hypothetical protein:-><-:702545..702670 126 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0649:PG0650|PG0649:PG0650:hypothetical protein:hypothetical protein:-><-:702545..702670 126 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 16 End: 126 ............... M G R T E Y Q V Y S S K I D C K E K S N A F W G G E S L L G E E E M G G R Protein_Len: 38 Strand: - Start: 3 End: 116 .. S W Y T I P R V S Y W T Y L E L I S Q L S F L L A K Q P P S D R R P S S S M .......... gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga 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================================================ gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0649:PG0650|PG0649:PG0650:hypothetical protein:hypothetical protein:-><-:702545..702670 126 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: NC_002950_PG0649_PG0650|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[702545,702670]|126 HSP 1 e-value: 9.0E-66 bit: 250.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga gccgaccaataggtaataggtcgaacggaataccaagtatacagttctaaaattgattgcaaagaaaaaagcaacgctttttggggaggagagtccctccttggagaggaggaaatgggaggaaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCGACCAAUAGGUAAUAGGUCGAACGGAAUACCAAGUAUACAGUUCUAAAAUUGAUUGCAAAGAAAAAAGCAACGCUUUUUGGGGAGGAGAGUCCCUCCUUGGAGAGGAGGAAAUGGGAGGAAGA .((..(((....(((((..((.((((.(.((((...)))).).))))....))..)))))................(((((..((((((......))))))..))))).......)))..)).... (-33.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUCCUCCCAUUUCCUCCUCUCCAAGGAGGGACUCUCCUCCCCAAAAAGCGUUGCUUUUUUCUUUGCAAUCAAUUUUAGAACUGUAUACUUGGUAUUCCGUUCGACCUAUUACCUAUUGGUCGGC ........(((.((((((((.....))))))))............((((..(((((..........)))))...)))).............)))........((((((...........)))))). (-23.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 382 119 71 172 106 NC_002950:PG0544|5end_type_I_restriction-modification_system,_M_subunit,_putative_596052..596282_POSITIVE 366 112 71 152 107 NC_002950:PG1672|5end_hypothetical_protein_1757637..1757867_POSITIVE 366 120 72 229 180 NC_002950:PG1099|5end_hypothetical_protein_1168168..1168398_NEGATIVE 366 112 71 152 107 NC_002950:PG0100|5end_hypothetical_protein_119219..119449_NEGATIVE 348 119 72 205 149 NC_002950:PG0227|5end_DNA_repair_protein_RadA_263978..264208_NEGATIVE 347 119 71 72 6 NC_002950:PG2225|5end_hypothetical_protein_2339440..2339670_POSITIVE 341 119 76 207 163 NC_002950:PG0692|5end_4-hydroxybutyryl-CoA_dehydratase_749002..749232_NEGATIVE 338 118 71 220 164 NC_002950:PG0538|5end_outer_membrane_efflux_protein_589142..589372_POSITIVE 336 120 71 81 36 NC_002950:PG0289|5end_hypothetical_protein_322860..323090_POSITIVE 331 105 70 40 1 NC_002950:PG1554|5end_hypothetical_protein_1635264..1635494_POSITIVE 325 113 76 191 142 NC_002950:PG1979|5end_hypothetical_protein_2067272..2067502_POSITIVE 324 118 71 72 20 NC_002950:PG1861|5end_hypothetical_protein_1960057..1960287_NEGATIVE 318 112 71 152 107 NC_002950:PG2076|5end_hypothetical_protein_2176445..2176675_POSITIVE 318 111 71 171 130 NC_002950:PG1307|5end_glucose-inhibited_division_protein_B_1387849..1388079_NEGATIVE 318 112 71 152 107 NC_002950:PG1267|5end_hypothetical_protein_1346966..1347196_POSITIVE 316 116 73 210 161 NC_002950:PG0779|5end_hypothetical_protein_832573..832803_NEGATIVE 315 118 76 146 96 NC_002950:PG0451|5end_CBS_domain_protein_491519..491749_POSITIVE 314 112 75 57 15 NC_002950:PG1008|5end_hypothetical_protein_1067644..1067874_NEGATIVE 312 119 77 186 140 NC_002950:PG2201|5end_peptide_deformylase_2309412..2309642_NEGATIVE 307 118 71 193 157 NC_002950:PG0466|5end_hypothetical_protein_510244..510474_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 458 120 73 60 11 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 340 105 69 43 3 NC_002950:PG1553|3end_CobN/magnesium_chelatase_family_protein_1635347..1635497_POSITIVE 336 120 71 151 106 NC_002950:PG0288|3end_lipoprotein,_putative_323010..323160_POSITIVE 324 118 71 59 7 NC_002950:PG1862|3end_hypothetical_protein_1960070..1960220_NEGATIVE 318 118 76 83 36 NC_002950:PG2040|3end_DNA-binding_protein,_histone-like_family_2138398..2138548_NEGATIVE 318 111 71 137 96 NC_002950:PG1308|3end_hypothetical_protein_1387883..1388033_NEGATIVE 316 119 77 78 40 NC_002950:PG0678|3end_pyrazinamidase/nicotinamidase,_putative_729471..729621_POSITIVE 315 118 76 149 99 NC_002950:PG0450|3end_hypothetical_protein_491602..491752_POSITIVE 314 112 75 60 18 NC_002950:PG1009|3end_hypothetical_protein_1067641..1067791_NEGATIVE 313 107 72 146 103 NC_002950:PG0228|3end_DdaH_family_protein_264024..264174_NEGATIVE 312 119 77 81 35 NC_002950:PG2202|3end_Holliday_junction_resolvase-like_protein_2309517..2309667_NEGATIVE 309 109 71 79 41 NC_002950:PG0721|3end_NLP/P60_family_protein_774535..774685_POSITIVE 307 118 71 63 27 NC_002950:PG0468|3end_mannose-6-phosphate_isomerase,_class_I_510374..510524_NEGATIVE 305 118 74 80 26 NC_002950:PG1655|3end_hypothetical_protein_1737384..1737534_POSITIVE 303 120 76 68 15 NC_002950:PG1118|3end_clpB_protein_1192083..1192233_NEGATIVE 303 120 71 72 20 NC_002950:PG0569|3end_hypothetical_protein_624697..624847_NEGATIVE 299 114 76 54 14 NC_002950:PG0028|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_34431..34581_POSITIVE 298 119 75 45 2 NC_002950:PG0142|3end_SpoOJ_regulator_protein_164755..164905_NEGATIVE 296 120 76 70 22 NC_002950:PG2199|3end_ABC_transporter,_ATP-binding_protein,_putative_2304786..2304936_NEGATIVE 296 119 71 71 21 NC_002950:PG0158|3end_competence_protein_F-related_protein_180995..181145_POSITIVE