Origin IGS: ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt .........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 acctttttataaatattttgcaagtaacttgttctcgtttcttacggtaagaacgagagagttttctgtttttatgcctgcaaagatactgagaaattggcagttaaggctataaaagtggtataatttattaaaaaaggtgcgattgtactgctataaataaaaagttttactaactttgccatagtttaaacagcattcaaaagttctttaa Mask Tandem Repeat Region ================================================ ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Find is-nt database================================================ Query_seq: PI0699:PI0700|PI0699:PI0700:conserved hypothetical protein:UDP-glucose 4-epimerase:->->:637225..637438 214 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0699:PI0700|PI0699:PI0700:conserved hypothetical protein:UDP-glucose 4-epimerase:->->:637225..637438 214 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0699:PI0700|PI0699:PI0700:conserved hypothetical protein:UDP-glucose 4-epimerase:->->:637225..637438 214 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 30 End: 140 ............................. M A K L V K L F I Y S S T I A P F L I N Y T T F I A L T A N F S V S L Q A .......................................................................... Protein_Len: 34 Strand: + Start: 112 End: 213 ............................................................................................................... M P I S Q Y L C R H K N R K L S R S Y R K K R E Q V T C K I F I K R . ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt 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================================================ ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0699:PI0700|PI0699:PI0700:conserved hypothetical protein:UDP-glucose 4-epimerase:->->:637225..637438 214 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Intra-Species Hit: Count: 1 Min: 1 Max: 214 Len: 214 Subject: pint_PI0699_PI0700|conserved hypothetical protein:UDP-glucose 4-epimerase|POSITIVE:POSITIVE|[637225,637438]|214 HSP 1 e-value: 1.0E-118 bit: 424.0 Len: 214 Query Start:1 Query End:214 Subject Strand: POSITIVE Subject Start: 1 Subject End: 214 ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt ttaaagaacttttgaatgctgtttaaactatggcaaagttagtaaaactttttatttatagcagtacaatcgcaccttttttaataaattataccacttttatagccttaactgccaatttctcagtatctttgcaggcataaaaacagaaaactctctcgttcttaccgtaagaaacgagaacaagttacttgcaaaatatttataaaaaggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAGAACUUUUGAAUGCUGUUUAAACUAUGGCAAAGUUAGUAAAACUUUUUAUUUAUAGCAGUACAAUCGCACCUUUUUUAAUAAAUUAUACCACUUUUAUAGCCUUAACUGCCAAUUUCUCAGUAUCUUUGCAGGCAUAAAAACAGAAAACUCUCUCGUUCUUACCGUAAGAAACGAGAACAAGUUACUUGCAAAAUAUUUAUAAAAAGGU ................(((((((......((((.((((((.....))))))))))....))))))).......((((((((..((((((........((((((.((((((((((.........)))).....)).))))))))))......((((.(((((((((((...)))).)))))))...))))...........)))))))))))))) (-34.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCUUUUUAUAAAUAUUUUGCAAGUAACUUGUUCUCGUUUCUUACGGUAAGAACGAGAGAGUUUUCUGUUUUUAUGCCUGCAAAGAUACUGAGAAAUUGGCAGUUAAGGCUAUAAAAGUGGUAUAAUUUAUUAAAAAAGGUGCGAUUGUACUGCUAUAAAUAAAAAGUUUUACUAACUUUGCCAUAGUUUAAACAGCAUUCAAAAGUUCUUUAA .....................(((.(((((..(((((((.((((...)))))))))))((((...((((((..((....((((((.((.(((((...((((.......))))....((..((((((((((((......)))).))))))))..))............))))).)).))))))....))..)))))).))))..))))))))... (-42.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 299 140 93 209 164 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 292 139 95 159 117 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 290 142 104 103 62 pint:PI1472|5end_hypothetical_protein_1395671..1395901_POSITIVE 287 139 103 35 1 pint:PI0459|5end_30S_ribosomal_protein_S10_432085..432315_POSITIVE 278 140 91 169 122 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 264 139 91 195 143 pint:PI1075|5end_pyruvate_phosphate_dikinase_995828..996058_POSITIVE 263 170 129 208 156 pint:PI0720|5end_conserved_hypothetical_protein_653949..654179_POSITIVE 261 195 159 177 145 pint:PI0735|5end_ABC_transporter,_ATP-binding_/_permease_668793..669023_POSITIVE 251 178 134 178 129 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 251 138 92 62 8 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 250 154 112 208 154 pint:PI0670|5end_hypothetical_protein_611000..611230_POSITIVE 250 154 112 132 78 pint:PI0669|5end_hypothetical_protein_610924..611154_POSITIVE 250 140 92 159 113 pint:PI0480|5end_preprotein_translocase,_SecY_subunit_441576..441806_POSITIVE 248 137 104 152 124 pint:PI0475|5end_50S_ribosomal_protein_L6_439453..439683_POSITIVE 245 140 93 188 132 pint:PI1033|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_950297..950527_POSITIVE 242 74 31 116 70 pint:PI2122|5end_conserved_hypothetical_protein_2069744..2069974_POSITIVE 242 142 105 44 10 pint:PI1711|5end_ABC_transporter,_ATP-binding_protein_1627597..1627827_POSITIVE 239 140 102 194 150 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 230 150 105 61 24 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 230 140 97 72 14 pint:PI0642|5end_thioredoxin_family_protein_584672..584902_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 195 159 64 32 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 251 140 92 142 89 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 250 154 112 83 29 pint:PI0668|3end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610955..611105_POSITIVE 250 140 92 151 105 pint:PI0479|3end_50S_ribosomal_protein_L15_441648..441798_POSITIVE 248 137 104 134 106 pint:PI0474|3end_30S_ribosomal_protein_S8_439515..439665_POSITIVE 247 170 124 90 25 pint:PI2037|3end_TIM-barrel_protein,_NifR3_family_1990369..1990519_POSITIVE 247 151 112 45 4 pint:PI0107|3end_2-methylthioadenine_synthetase_104652..104802_POSITIVE 243 176 131 59 9 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 242 142 105 141 107 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 237 194 151 80 34 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 232 205 174 140 107 pint:PI1909|3end_DNA_gyrase,_B_subunit_1855270..1855420_POSITIVE 231 171 131 124 80 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 230 137 96 96 62 pint:PI0150|3end_hypothetical_protein_143833..143983_POSITIVE 229 138 113 47 14 pint:PI0215|3end_hypothetical_protein_209004..209154_POSITIVE 226 41 4 52 15 pint:PI0016|3end_magnesium_chelatase,_subunit_ChlI_21725..21875_POSITIVE 225 188 147 46 3 pint:PI0841|3end_hypothetical_protein_775581..775731_POSITIVE 225 99 56 45 4 pint:PI0639|3end_small_heat_shock_protein_583165..583315_POSITIVE 225 117 97 128 108 pint:PI0190|3end_3-dehydroquinate_dehydratase_II_181126..181276_POSITIVE 224 173 132 51 6 pint:PI1610|3end_Na+/H+_anti-porter_1538002..1538152_POSITIVE 223 135 102 49 9 pint:PI1689|3end_conserved_hypothetical_protein_1605202..1605352_POSITIVE