Origin IGS: tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat .........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 atcgttctcctgtatatcccagacggtagacttcgttaaattttttaatgatagtgattttccttgtcgcttcatattctttttattaacaatacaatattatagatagtggtgcaaaagtaaatactaaaaactgaacctgcaagaaaattatagtaaaaataaatctgcaatgaaaaatcgagcaaagtggttggaataatgaaatagatttcttaactttgcatatacacacttacatcgtacggaatggaaccattagcagaaaga Mask Tandem Repeat Region ================================================ tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Find is-nt database================================================ Query_seq: PI0914:PI0915|PI0914:PI0915:ATPase, AAA family:hypothetical protein:->->:845053..845322 270 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0914:PI0915|PI0914:PI0915:ATPase, AAA family:hypothetical protein:->->:845053..845322 270 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0914:PI0915|PI0914:PI0915:ATPase, AAA family:hypothetical protein:->->:845053..845322 270 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 36 End: 182 ................................... M C I C K V K K S I S L F Q P L C S I F H C R F I F T I I F L Q V Q F L V F T F A P L S I I L Y C ........................................................................................ Protein_Len: 46 Strand: + Start: 59 End: 196 .......................................................... M Y F I I P T T L L D F S L Q I Y F Y Y N F L A G S V F S I Y F C T T I Y N I V L L I K R I .......................................................................... Protein_Len: 31 Strand: + Start: 178 End: 270 ................................................................................................................................................................................. M V N K K N M K R Q G K S L S L K N L T K S T V W D I Q E N D Protein_Len: 31 Strand: - Start: 165 End: 257 .................................................................................................................................................................... R Y Y Q I T L L F F I F R C P F D S D N F F K V F D V T Q S M ............. Protein_Len: 30 Strand: - Start: 2 End: 91 . K R S I T G N R V I Y T H I H L T L F D I E N N W G S Q E M ................................................................................................................................................................................... tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat 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================================================ tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0914:PI0915|PI0914:PI0915:ATPase, AAA family:hypothetical protein:->->:845053..845322 270 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcgatttttcattgcagatttatttttactataattttcttgcaggttcagtttttagtatttacttttgcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat Intra-Species Hit: Count: 1 Min: 1 Max: 270 Len: 270 Subject: pint_PI0914_PI0915|ATPase, AAA family:hypothetical protein|POSITIVE:POSITIVE|[845053,845322]|270 HSP 1 e-value: 8.0E-59 bit: 228.0 Len: 115 Query Start:156 Query End:270 Subject Strand: POSITIVE Subject Start: 156 Subject End: 270 ...........................................................................................................................................................gcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat ...........................................................................................................................................................gcaccactatctataatattgtattgttaataaaaagaatatgaagcgacaaggaaaatcactatcattaaaaaatttaacgaagtctaccgtctgggatatacaggagaacgat HSP 2 e-value: 6.0E-44 bit: 178.0 Len: 90 Query Start:1 Query End:90 Subject Strand: POSITIVE Subject Start: 1 Subject End: 90 tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcga.................................................................................................................................................................................... tctttctgctaatggttccattccgtacgatgtaagtgtgtatatgcaaagttaagaaatctatttcattattccaaccactttgctcga.................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUCUGCUAAUGGUUCCAUUCCGUACGAUGUAAGUGUGUAUAUGCAAAGUUAAGAAAUCUAUUUCAUUAUUCCAACCACUUUGCUCGAUUUUUCAUUGCAGAUUUAUUUUUACUAUAAUUUUCUUGCAGGUUCAGUUUUUAGUAUUUACUUUUGCACCACUAUCUAUAAUAUUGUAUUGUUAAUAAAAAGAAUAUGAAGCGACAAGGAAAAUCACUAUCAUUAAAAAAUUUAACGAAGUCUACCGUCUGGGAUAUACAGGAGAACGAU ((.((((.((....((((((..(.(((.(((((((((.((((...((((((((((((((....)))).)))........)))))))..((....))..)))).))))))...........((((((((..(.((((((((((..((((.((...((((................))))..)).))))..)))))).)))).)..))))))))...........................)))))).)..))))))....)).)))).)). (-48.19) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCGUUCUCCUGUAUAUCCCAGACGGUAGACUUCGUUAAAUUUUUUAAUGAUAGUGAUUUUCCUUGUCGCUUCAUAUUCUUUUUAUUAACAAUACAAUAUUAUAGAUAGUGGUGCAAAAGUAAAUACUAAAAACUGAACCUGCAAGAAAAUUAUAGUAAAAAUAAAUCUGCAAUGAAAAAUCGAGCAAAGUGGUUGGAAUAAUGAAAUAGAUUUCUUAACUUUGCAUAUACACACUUACAUCGUACGGAAUGGAACCAUUAGCAGAAAGA ...(((((.((((((....((....(((((..(((((((.....)))))))..(((((((((.((((.(.((((...(((...((((........))))....)))(((((.(((....)))..))))).....)))).).)))))))))))))............)))))..)).........(((((((....(((((..........)))))...))))))).................))))))...))))).............. (-45.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 59 14 122 79 pint:PI1008|5end_cytochrome_c_nitrite_reductase,_small_subunit_928784..929014_POSITIVE 298 158 121 230 186 pint:PI0970|5end_hypothetical_protein_897254..897484_POSITIVE 295 48 1 90 31 pint:PI1826|5end_ATP-dependent_DNA_helicase_1765650..1765880_POSITIVE 289 47 7 190 147 pint:PI0047|5end_phosphomethylpyrimidine_kinase_45964..46194_POSITIVE 258 47 7 64 13 pint:PI2102|5end_DNA_topoisomerase_IV,_subunit_B_2055706..2055936_POSITIVE 256 48 3 184 132 pint:PI2005|5end_potassium_uptake_protein_1962950..1963180_POSITIVE 256 48 2 192 133 pint:PI0818|5end_alpha-amylase_758185..758415_POSITIVE 254 270 235 73 33 pint:PI1664|5end_conserved_hypothetical_protein_1577285..1577515_POSITIVE 254 270 235 73 33 pint:PI0370|5end_conserved_hypothetical_protein_340453..340683_POSITIVE 250 48 4 140 94 pint:PI1747|5end_membrane-bound_lytic_murein_transglycosylase_D_1667483..1667713_POSITIVE 248 48 1 224 182 pint:PI2149|5end_3-oxoacyl-acyl-carrier-protein_synthase_2095454..2095684_POSITIVE 248 270 240 145 110 pint:PI2020|5end_glycosyl_transferase,_group_2_family_protein_1976866..1977096_POSITIVE 247 41 2 230 189 pint:PI1660|5end_hypothetical_protein_1574659..1574889_POSITIVE 244 50 1 57 3 pint:PI1379|5end_hypothetical_protein_1301817..1302047_POSITIVE 241 46 12 55 20 pint:PI1419|5end_conserved_hypothetical_protein;_membrane_protease_subunits,_stomatin/prohibitin_homologs_1339136..1339366_POSITIVE 237 45 1 230 173 pint:PI0693|5end_periplasmic_iron_binding_protein,_ABC_transporter_628387..628617_POSITIVE 237 250 201 187 141 pint:PI0351|5end_hypothetical_protein_324317..324547_POSITIVE 234 34 6 72 38 pint:PI1201|5end_peptidyl-arginine_deiminase_1116598..1116828_POSITIVE 232 106 62 44 2 pint:PI2177|5end_phosphoribosylaminoimidazole_carboxylase_2117127..2117357_POSITIVE 231 47 2 63 13 pint:PI1300|5end_probable_glycosyltransferase_1213190..1213420_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 295 48 1 65 6 pint:PI1825|3end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_1765705..1765855_POSITIVE 256 48 2 136 77 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 254 270 235 55 15 pint:PI1663|3end_hypothetical_protein_1577347..1577497_POSITIVE 253 51 23 57 30 pint:PI1062|3end_TPR_repeat_protein_980780..980930_POSITIVE 241 46 12 40 5 pint:PI1418|3end_UDP-N-acetylglucosamine_2-epimerase_1339201..1339351_POSITIVE 237 45 1 132 75 pint:PI0691|3end_hypothetical_protein_628369..628519_POSITIVE 232 54 14 90 47 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 229 48 24 65 41 pint:PI0101|3end_lauroyl/myristoyl_acyltransferase_97753..97903_POSITIVE 228 159 126 151 118 pint:PI1816|3end_acid_phosphatase_1755514..1755664_POSITIVE 228 105 61 72 31 pint:PI1610|3end_Na+/H+_anti-porter_1538002..1538152_POSITIVE 225 158 115 87 45 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 224 38 3 147 106 pint:PI2004|3end_1-deoxy-D-xylulose_5-phosphate_synthase_1963004..1963154_POSITIVE 224 47 2 119 69 pint:PI0150|3end_hypothetical_protein_143833..143983_POSITIVE 222 48 19 25 4 pint:PI2013|3end_hypothetical_protein_1972789..1972939_POSITIVE 221 268 228 142 106 pint:PI1235|3end_60_kDa_chaperonin,_groEL,_cpn60_1158888..1159038_POSITIVE 221 32 8 61 38 pint:PI0025|3end_two_component_system_sensor_histidine_kinase_29823..29973_POSITIVE 220 157 121 150 113 pint:PI0969|3end_30S_ribosomal_protein_S16_897261..897411_POSITIVE 220 23 1 106 83 pint:PI0219|3end_conserved_hypothetical_protein_212037..212187_POSITIVE 219 114 74 62 23 pint:PI1659|3end_hypothetical_protein_1576472..1576622_POSITIVE 219 47 9 44 3 pint:PI1299|3end_glycosyltransferase_1213251..1213401_POSITIVE