Origin IGS: taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg .........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 caagcggaagacggctcctaccactacggtgataaggatagcccataggaatgccgcaatatcgttgtccttgtaccacagcgaaacgaataggcacagcgacatcagtaaggcttctattcctaaaagcgcacctaagattttcgatatagtttttagattgagcattgctaacctttcttacagtcttta Mask Tandem Repeat Region ================================================ taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Find is-nt database================================================ Query_seq: PI2005:PI2006|PI2005:PI2006:potassium uptake protein:potassium uptake system protein:->->:1964428..1964619 192 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2005:PI2006|PI2005:PI2006:potassium uptake protein:potassium uptake system protein:->->:1964428..1964619 192 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2005:PI2006|PI2005:PI2006:potassium uptake protein:potassium uptake system protein:->->:1964428..1964619 192 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 45 End: 191 ............................................ M E N L R C A F R N R S L T D V A V P I R F A V V Q G Q R Y C G I P M G Y P Y H R S G R S R L P L . Protein_Len: 56 Strand: + Start: 25 End: 192 ........................ M L N L K T I S K I L G A L L G I E A L L M S L C L F V S L W Y K D N D I A A F L W A I L I T V V V G A V F R L Protein_Len: 35 Strand: - Start: 44 End: 148 ........................................... I S F R L H A K L F L L R V S T A T G I R K A T T C P C R Y Q P M G M ............................................ Protein_Len: 54 Strand: - Start: 3 End: 164 .. L S Y S L N A I S L R F V I D F I K P A S K P I S A K S I D S H R N T E S H Y L S L S I A A N R H A I R I M ............................ taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg 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================================================ taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2005:PI2006|PI2005:PI2006:potassium uptake protein:potassium uptake system protein:->->:1964428..1964619 192 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Intra-Species Hit: Count: 1 Min: 1 Max: 192 Len: 192 Subject: pint_PI2005_PI2006|potassium uptake protein:potassium uptake system protein|POSITIVE:POSITIVE|[1964428,1964619]|192 HSP 1 e-value: 1.0E-105 bit: 381.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg taaagactgtaagaaaggttagcaatgctcaatctaaaaactatatcgaaaatcttaggtgcgcttttaggaatagaagccttactgatgtcgctgtgcctattcgtttcgctgtggtacaaggacaacgatattgcggcattcctatgggctatccttatcaccgtagtggtaggagccgtcttccgcttg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGACUGUAAGAAAGGUUAGCAAUGCUCAAUCUAAAAACUAUAUCGAAAAUCUUAGGUGCGCUUUUAGGAAUAGAAGCCUUACUGAUGUCGCUGUGCCUAUUCGUUUCGCUGUGGUACAAGGACAACGAUAUUGCGGCAUUCCUAUGGGCUAUCCUUAUCACCGUAGUGGUAGGAGCCGUCUUCCGCUUG ..(((((........(((...((((((.((..(((....((((((.(((((....((((..((((((((....)))))))...............)..))))....))))).))))))....)))....))))))))......)))...((((...((((((((....)))))))))))))))))....... (-47.86) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAGCGGAAGACGGCUCCUACCACUACGGUGAUAAGGAUAGCCCAUAGGAAUGCCGCAAUAUCGUUGUCCUUGUACCACAGCGAAACGAAUAGGCACAGCGACAUCAGUAAGGCUUCUAUUCCUAAAAGCGCACCUAAGAUUUUCGAUAUAGUUUUUAGAUUGAGCAUUGCUAACCUUUCUUACAGUCUUUA ......((((((.........(((....)))..((((.((((...((((((((..((..(((.(.((((.((((.((....((...))....)).)))).)))).).)))..))...))))))))...((.((.((((((.............))))))..)).))...)))).)))).......)))))). (-45.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 190 150 215 177 pint:PI1399|5end_hypothetical_protein_1320573..1320803_POSITIVE 399 140 91 54 12 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 390 130 88 66 14 pint:PI0536|5end_hypothetical_protein_492163..492393_POSITIVE 369 149 109 55 10 pint:PI0411|5end_conserved_hypothetial_protein;_possible_hydrolase_377700..377930_POSITIVE 355 167 121 215 170 pint:PI0323|5end_hypothetical_protein_305349..305579_POSITIVE 350 116 78 180 148 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 342 189 151 222 173 pint:PI0404|5end_integrase_371295..371525_POSITIVE 342 153 111 141 102 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 340 189 144 54 6 pint:PI0729|5end_integrase_661428..661658_POSITIVE 340 124 81 220 176 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 332 173 136 224 185 pint:PI1704|5end_50S_ribosomal_protein_L32_1621418..1621648_POSITIVE 331 139 93 186 125 pint:PI0758|5end_hypothetical_protein_690247..690477_POSITIVE 331 146 103 65 22 pint:PI0266|5end_DNA_primase_(bacterial_type)_257931..258161_POSITIVE 325 120 73 151 105 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 323 189 150 39 1 pint:PI2025|5end_conserved_hypothetical_protein_1979028..1979258_POSITIVE 323 100 53 218 158 pint:PI0464|5end_30S_ribosomal_protein_S19_435008..435238_POSITIVE 318 129 85 53 9 pint:PI1919|5end_2,3-bisphosphoglycerate-independent_phosphoglycerate_mutase_1862299..1862529_POSITIVE 317 100 51 159 97 pint:PI0471|5end_50S_ribosomal_protein_L24_437736..437966_POSITIVE 315 188 147 62 14 pint:PI2072|5end_possible_ISmav2-related_transposase_2030737..2030967_POSITIVE 314 120 79 73 13 pint:PI0962|5end_phosphoglycerate_mutase_892101..892331_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 137 93 143 94 pint:PI1417|3end_MATE_efflux_family_protein_(Na+-driven_multidrug_efflux_pump)_1337501..1337651_POSITIVE 340 189 144 54 6 pint:PI0728|3end_integrase_661508..661658_POSITIVE 326 117 77 94 33 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 324 190 141 149 97 pint:PI1979|3end_conserved_hypothetical_protein_1937327..1937477_POSITIVE 323 152 115 96 50 pint:PI0846|3end_transcription_regulator,_CRP_family_781009..781159_POSITIVE 322 188 146 114 70 pint:PI0966|3end_possible_glycosyl_hydrolase_895209..895359_POSITIVE 317 190 141 151 95 pint:PI0205|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_198095..198245_POSITIVE 315 189 144 143 92 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 313 139 92 54 10 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 313 137 93 94 27 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 312 140 91 128 59 pint:PI1941|3end_outer_membrane_receptor;_ragA_protein_1900619..1900769_POSITIVE 312 138 91 140 76 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 311 189 145 143 101 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 308 126 85 63 12 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 307 177 131 141 95 pint:PI0978|3end_hypothetical_protein_905114..905264_POSITIVE 302 106 62 149 96 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 302 179 131 145 95 pint:PI0730|3end_hypothetical_protein_662166..662316_POSITIVE 302 140 92 75 40 pint:PI0431|3end_Xaa-Pro_aminopeptidase_404673..404823_POSITIVE 300 119 77 83 34 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 299 137 91 125 60 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE