Origin IGS: cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca .........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 tgctaccacattgttttttcttgtttgttcagcttattatagtcggtgtatataccacctatgctgcaagaaaccaatagtaagcaaattgcaattgttaataagggacgacgatacattggttgttctaacatctatttatgcttctttttccttgtctgaaagttttgttgccgcaataaagtagagtatcaaagcgatgtaagcaacgagtgcgagaagttcagaaaggtggttttgccaccattcggcgtggtcgaactcg Mask Tandem Repeat Region ================================================ cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Find is-nt database================================================ Query_seq: PI1448:PI1449|PI1448:PI1449:hypothetical protein:conserved hypothetical protein:->->:1371893..1372157 265 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1448:PI1449|PI1448:PI1449:hypothetical protein:conserved hypothetical protein:->->:1371893..1372157 265 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1448:PI1449|PI1448:PI1449:hypothetical protein:conserved hypothetical protein:->->:1371893..1372157 265 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 128 End: 226 ............................................................................................................................... M D V R T T N V S S S L I N N C N L L T I G F L Q H R W Y I H R L ....................................... Protein_Len: 44 Strand: + Start: 132 End: 260 ................................................................................................................................... M L E Q P M Y R R P L L T I A I C L L L V S C S I G G I Y T D Y N K L N K Q E K T M W * ..... Protein_Len: 38 Strand: - Start: 107 End: 220 .......................................................................................................... V L F F F C L Y I N S C G I Y R R G K N V I A I Q K S N T E Q L M P P I Y M ............................................. Protein_Len: 58 Strand: - Start: 82 End: 255 ................................................................................. K I A A V F S E S L S F S A Y I S T L V V L T D D D R I L L Q L K S V I P K K C C L H Y I C R S Y Y A S C V L F F M .......... cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca 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================================================ cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1448:PI1449|PI1448:PI1449:hypothetical protein:conserved hypothetical protein:->->:1371893..1372157 265 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Intra-Species Hit: Count: 1 Min: 1 Max: 265 Len: 265 Subject: pint_PI1448_PI1449|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1371893,1372157]|265 HSP 1 e-value: 1.0E-148 bit: 525.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca cgagttcgaccacgccgaatggtggcaaaaccacctttctgaacttctcgcactcgttgcttacatcgctttgatactctactttattgcggcaacaaaactttcagacaaggaaaaagaagcataaatagatgttagaacaaccaatgtatcgtcgtcccttattaacaattgcaatttgcttactattggtttcttgcagcataggtggtatatacaccgactataataagctgaacaaacaagaaaaaacaatgtggtagca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAGUUCGACCACGCCGAAUGGUGGCAAAACCACCUUUCUGAACUUCUCGCACUCGUUGCUUACAUCGCUUUGAUACUCUACUUUAUUGCGGCAACAAAACUUUCAGACAAGGAAAAAGAAGCAUAAAUAGAUGUUAGAACAACCAAUGUAUCGUCGUCCCUUAUUAACAAUUGCAAUUUGCUUACUAUUGGUUUCUUGCAGCAUAGGUGGUAUAUACACCGACUAUAAUAAGCUGAACAAACAAGAAAAAACAAUGUGGUAGCA ...((...(((((.((.((((((((((((....((((((((((......(((.....))).....((((..(((.........)))..))))..........)))))).))))........(((..((((((((...(((((.....))).))..))))...))))......)))..))))).)))))))))(((((((((((((((.((((......)))).)))).....))))......))))))).......))))).)). (-55.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUACCACAUUGUUUUUUCUUGUUUGUUCAGCUUAUUAUAGUCGGUGUAUAUACCACCUAUGCUGCAAGAAACCAAUAGUAAGCAAAUUGCAAUUGUUAAUAAGGGACGACGAUACAUUGGUUGUUCUAACAUCUAUUUAUGCUUCUUUUUCCUUGUCUGAAAGUUUUGUUGCCGCAAUAAAGUAGAGUAUCAAAGCGAUGUAAGCAACGAGUGCGAGAAGUUCAGAAAGGUGGUUUUGCCACCAUUCGGCGUGGUCGAACUCG ((((...((((((((((((((..((((((..((.....((((..((((....))))..))))((.((((((...((((.((((.....)))).))))...((((((((.((.((..((((((.(((....))).)))...)))..)))).)))))))).......)))))).)).))))))))..))))....)))))))))).)))).(((((.(((...((...(((.(((((.....))))).))).))....))).))))) (-63.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 60 11 126 61 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 352 50 1 125 76 pint:PI2104|5end_carboxyl-terminal_protease_2057910..2058140_POSITIVE 340 42 1 58 6 pint:PI1306|5end_dipeptidyl_peptidase_IV_1220264..1220494_POSITIVE 334 89 46 207 164 pint:PI1413|5end_hypothetical_protein_1333727..1333957_POSITIVE 319 60 14 54 6 pint:PI0793|5end_ABC_transporter,_permease_protein_729754..729984_POSITIVE 316 220 171 84 37 pint:PI1878|5end_hypothetical_protein_1819989..1820219_POSITIVE 316 79 34 103 43 pint:PI1632|5end_hypothetical_protein_1552819..1553049_POSITIVE 311 60 14 218 166 pint:PI0323|5end_hypothetical_protein_305349..305579_POSITIVE 307 90 41 197 138 pint:PI0313|5end_conserved_hypothetical_protein_294833..295063_POSITIVE 307 90 41 85 26 pint:PI0311|5end_hypothetical_protein_294721..294951_POSITIVE 305 60 11 143 93 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 297 95 51 190 153 pint:PI0618|5end_acyl-CoA_dehydrogenase_family_protein_567409..567639_POSITIVE 294 90 43 204 147 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 293 120 71 127 68 pint:PI0693|5end_periplasmic_iron_binding_protein,_ABC_transporter_628387..628617_POSITIVE 290 128 89 94 55 pint:PI0681|5end_hypothetical_protein_619000..619230_POSITIVE 290 128 89 66 27 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 289 59 16 205 159 pint:PI0583|5end_hypothetical_protein_525948..526178_POSITIVE 287 59 14 126 69 pint:PI0943|5end_conserved_hypothetical_protein_875153..875383_POSITIVE 286 77 33 76 30 pint:PI1451|5end_outer_membrane_receptor_proteins,_tonB_dependent_(possibly_iron_transport_related)_1372931..1373161_POSITIVE 286 73 32 217 177 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 364 43 4 134 94 pint:PI0936|3end_conserved_hypothetical_protein_869464..869614_POSITIVE 352 50 1 69 20 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 335 94 51 106 56 pint:PI2166|3end_hypothetical_protein_2112073..2112223_POSITIVE 333 58 12 49 7 pint:PI1970|3end_hypothetical_protein_1927882..1928032_POSITIVE 319 60 11 66 13 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 305 60 11 146 96 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 301 57 11 60 10 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 298 48 1 76 24 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 296 215 171 147 107 pint:PI1877|3end_hypothetical_protein_1820139..1820289_POSITIVE 289 58 14 89 36 pint:PI0418|3end_hypothetical_protein_386856..387006_POSITIVE 289 58 14 61 8 pint:PI0420|3end_hypothetical_protein_386828..386978_POSITIVE 287 59 14 142 85 pint:PI0944|3end_hypothetical_protein_875249..875399_POSITIVE 286 82 44 108 57 pint:PI1572|3end_hypothetical_protein_1498215..1498365_POSITIVE 286 73 32 147 107 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 283 44 1 76 33 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 278 69 21 68 26 pint:PI1049|3end_hypothetical_protein_967341..967491_POSITIVE 275 46 2 75 29 pint:PI1241|3end_probable_phosphoesterase_1167233..1167383_POSITIVE 273 54 12 141 88 pint:PI1548|3end_conserved_hypothetical_protein_1466886..1467036_POSITIVE 273 36 6 150 110 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 271 225 181 146 94 pint:PI0519|3end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_478809..478959_POSITIVE