Origin IGS: taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt .........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 aattattttatagataattctaccttacatctgtaactacaatttgtaaaaatgtatctgacatttttatattgcttttaattagtttactattcttcccaatcaaatggtttggcgtgtgcaccacttgctccgccttcttctagattaatatttatttctaaatctccttttttgttcacaccactattcttagatggtgaagttgtgagaaagtgagagtttataatgtgtattattgttgaagttggttgttcgtatacttttatgtgtttcatttattggtaaagattttaaggttttaagatta Mask Tandem Repeat Region ================================================ taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Find is-nt database================================================ Query_seq: PI1105:PI1106|PI1105:PI1106:hypothetical protein:conserved hypothetical protein:->->:1030296..1030605 310 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1105:PI1106|PI1105:PI1106:hypothetical protein:conserved hypothetical protein:->->:1030296..1030605 310 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1105:PI1106|PI1105:PI1106:hypothetical protein:conserved hypothetical protein:->->:1030296..1030605 310 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 33 End: 218 ................................ M K H I K V Y E Q P T S T I I H I I N S H F L T T S P S K N S G V N K K G D L E I N I N L E E G G A S G A H A K P F D W ............................................................................................ Protein_Len: 35 Strand: + Start: 184 End: 288 ....................................................................................................................................................................................... M V H T P N H L I G K N S K L I K S N I K M S D T F L Q I V V T D V R ...................... Protein_Len: 34 Strand: - Start: 168 End: 269 ....................................................................................................................................................................... F F A S C T T C V G F W K I P F F L L S I L L L I F I D S V N K C M ......................................... Protein_Len: 35 Strand: - Start: 95 End: 199 .............................................................................................. K R V V E G D L F L P T F L F P S K S I F I L R S S P P A L P A C A M ............................................................................................................... taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt 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================================================ taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 66 HP_score: -6.1 Tail_Score: -3.76321 Start: 240 End: 266 Full_Region: tctgtaactacaatt tgtaaaaatgt atctg acatttttata ttgcttttaattagt ...............................................................................................................................................................................................................................................tgtaaaaatgtatctgacatttttata............................................ TransTerm Strand: - Conf: 63 HP_score: -6.5 Tail_Score: -3.45152 Start: 242 End: 264 Full_Region: tgtaactacaatttg taaaaatgt atctg acattttta tattgcttttaatta .................................................................................................................................................................................................................................................taaaaatgtatctgacattttta.............................................. Find igs database================================================ Query_seq: PI1105:PI1106|PI1105:PI1106:hypothetical protein:conserved hypothetical protein:->->:1030296..1030605 310 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Intra-Species Hit: Count: 1 Min: 1 Max: 310 Len: 310 Subject: pint_PI1105_PI1106|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1030296,1030605]|310 HSP 1 e-value: 1.0E-175 bit: 615.0 Len: 310 Query Start:1 Query End:310 Subject Strand: POSITIVE Subject Start: 1 Subject End: 310 taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt taatcttaaaaccttaaaatctttaccaataaatgaaacacataaaagtatacgaacaaccaacttcaacaataatacacattataaactctcactttctcacaacttcaccatctaagaatagtggtgtgaacaaaaaaggagatttagaaataaatattaatctagaagaaggcggagcaagtggtgcacacgccaaaccatttgattgggaagaatagtaaactaattaaaagcaatataaaaatgtcagatacatttttacaaattgtagttacagatgtaaggtagaattatctataaaataatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUUAAAACCUUAAAAUCUUUACCAAUAAAUGAAACACAUAAAAGUAUACGAACAACCAACUUCAACAAUAAUACACAUUAUAAACUCUCACUUUCUCACAACUUCACCAUCUAAGAAUAGUGGUGUGAACAAAAAAGGAGAUUUAGAAAUAAAUAUUAAUCUAGAAGAAGGCGGAGCAAGUGGUGCACACGCCAAACCAUUUGAUUGGGAAGAAUAGUAAACUAAUUAAAAGCAAUAUAAAAAUGUCAGAUACAUUUUUACAAAUUGUAGUUACAGAUGUAAGGUAGAAUUAUCUAUAAAAUAAUU ..........((((((...(((((.((((((((((............................((((.....(((((.......((((.((((.((((..........(((((.(((....))))))))........))))))))))))........))))).....))))..(((((.(((.....))).).))))....))))).))))))))))...((((.((........(((((.(((((((((.....)))))))))...))))))))))).....))))))..................... (-53.93) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAUUUUAUAGAUAAUUCUACCUUACAUCUGUAACUACAAUUUGUAAAAAUGUAUCUGACAUUUUUAUAUUGCUUUUAAUUAGUUUACUAUUCUUCCCAAUCAAAUGGUUUGGCGUGUGCACCACUUGCUCCGCCUUCUUCUAGAUUAAUAUUUAUUUCUAAAUCUCCUUUUUUGUUCACACCACUAUUCUUAGAUGGUGAAGUUGUGAGAAAGUGAGAGUUUAUAAUGUGUAUUAUUGUUGAAGUUGGUUGUUCGUAUACUUUUAUGUGUUUCAUUUAUUGGUAAAGAUUUUAAGGUUUUAAGAUUA (((((((.....)))))))..((((((.(((((((((((((((..((((((((((.....))))))))))))))........))).))))........(((((.((((((...((((.(.(((.....))).)))))..((((.....((((((.((((......((((((((((..(...((((((((....))).))))).....)..)))))).))))......)))).)))))).....))))............((((......)))).)))))))))))...))))..)))))).......... (-63.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 220 171 104 57 pint:PI0993|5end_probable_TPR-repeat-containing_protein_917175..917405_POSITIVE 328 216 175 172 129 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 319 217 171 190 123 pint:PI0645|5end_hypothetical_protein_586419..586649_POSITIVE 319 217 171 169 102 pint:PI0643|5end_hypothetical_protein_586398..586628_POSITIVE 314 218 172 81 39 pint:PI0847|5end_thiamine_biosynthesis_lipoprotein,_ApbE_781130..781360_POSITIVE 314 208 165 87 35 pint:PI0277|5end_hypothetical_protein_264980..265210_POSITIVE 307 211 173 83 49 pint:PI1720|5end_conserved_hypothetical_protein_1636146..1636376_POSITIVE 305 209 164 65 7 pint:PI0839|5end_conserved_hypothetical_protein_773843..774073_POSITIVE 303 199 160 174 135 pint:PI0447|5end_DNA-directed_RNA_polymerase,_beta'_subunit_417314..417544_POSITIVE 302 220 176 93 36 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 302 202 173 194 163 pint:PI0652|5end_conserved_hypothetical_protein_592878..593108_POSITIVE 296 220 171 102 44 pint:PI0020|5end_conserved_hypothetical_protein_24525..24755_POSITIVE 293 217 173 50 2 pint:PI0378|5end_conserved_hypothetical_protein;_possible_helicase_348026..348256_POSITIVE 293 220 172 167 100 pint:PI0321|5end_conserved_hypothetical_protein_302598..302828_POSITIVE 291 210 174 83 46 pint:PI1293|5end_ISPg4-related_transposase_(IS5_family)_1207099..1207329_POSITIVE 291 210 174 83 46 pint:PI1259|5end_ISPg4-related_transposase_(IS5_family)_1180741..1180971_POSITIVE 291 210 174 83 46 pint:PI1181|5end_ISPg4-related_transposase_(IS5_family)_1102670..1102900_POSITIVE 291 210 174 83 46 pint:PI1085|5end_ISPg4-related_transposase_(IS5_family)_1005151..1005381_POSITIVE 287 217 173 90 49 pint:PI1672|5end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1587027..1587257_POSITIVE 286 198 156 155 115 pint:PI0897|5end_ferredoxin,_4Fe-4S_828227..828457_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 220 171 71 24 pint:PI0992|3end_RNA_polymerase_sigma-70_factor_917222..917372_POSITIVE 316 208 170 99 57 pint:PI1789|3end_hypothetical_protein_1719037..1719187_POSITIVE 307 211 173 64 30 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 305 209 164 69 11 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 303 199 160 144 105 pint:PI0446|3end_DNA-directed_RNA_polymerase,_beta_subunit_417364..417514_POSITIVE 302 220 176 79 22 pint:PI1832|3end_conserved_hypothetical_protein_1774023..1774173_POSITIVE 302 202 173 131 100 pint:PI0651|3end_HD_superfamily_hydrolase_592895..593045_POSITIVE 301 204 168 88 33 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 294 207 164 109 62 pint:PI1686|3end_hypothetical_protein_1601898..1602048_POSITIVE 293 220 172 141 74 pint:PI0320|3end_probable_cobalamin_adenosyltransferase_302652..302802_POSITIVE 286 211 175 149 113 pint:PI2098|3end_hypothetical_protein_2052473..2052623_POSITIVE 286 198 156 124 84 pint:PI0896|3end_2-oxoglutarate_oxidoreductase,_alpha_subunit_828276..828426_POSITIVE 279 217 171 68 25 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 277 207 168 73 24 pint:PI2114|3end_conserved_hypothetical_protein_2064789..2064939_POSITIVE 277 220 174 75 16 pint:PI0783|3end_hypothetical_protein_723397..723547_POSITIVE 276 214 174 122 84 pint:PI2008|3end__ABC_transporter,_ATP-binding_protein_1967961..1968111_POSITIVE 276 214 174 46 7 pint:PI1708|3end_hypothetical_protein_1625562..1625712_POSITIVE 266 213 172 95 58 pint:PI1790|3end_hypothetical_protein_1722762..1722912_POSITIVE 261 212 171 77 38 pint:PI0883|3end_para-aminobenzoate_synthase_component_I_817251..817401_POSITIVE 261 220 171 132 61 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE