Origin IGS: tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa .........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 ttcatgaaaatacgactcatcttttttcttggtttaaccttgcttctatgcttcggttgcacgagtagtagggatgaggagagattatgcgaaatattcgagcaatccaagaaaatgcctgaatacgatgaaatggcaatattggtcaattttctgaaatttaaacaaatatgctgcaacgaattagttgcattggatgcactgtatcctgcttggcgcgattca Mask Tandem Repeat Region ================================================ tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Find is-nt database================================================ Query_seq: TF0896:TF0897|TF0896:TF0897:hypothetical protein:hypothetical protein:->->:945274..945498 225 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0896:TF0897|TF0896:TF0897:hypothetical protein:hypothetical protein:->->:945274..945498 225 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0896:TF0897|TF0896:TF0897:hypothetical protein:hypothetical protein:->->:945274..945498 225 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 84 End: 206 ................................................................................... M L P F H R I Q A F S W I A R I F R I I S P H P Y Y S C N R S I E A R L N Q E K R ................... Protein_Len: 59 Strand: + Start: 47 End: 223 .............................................. M Q H I C L N F R K L T N I A I S S Y S G I F L D C S N I S H N L S S S L L L V Q P K H R S K V K P R K K M S R I F M .. Protein_Len: 60 Strand: - Start: 1 End: 222 E N C C I Q K F K L F N V L I A M E D Y E P M K K S Q E F I E C L R E E D R S S T C G F C L L L T L G L F F I L R I K M ... tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa 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================================================ tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 53 HP_score: -5.6 Tail_Score: -3.07622 Start: 34 End: 51 Full_Region: tttaaacaaatatgc tgcaac gaatta gttgca ttggatgcactgtat .................................tgcaacgaattagttgca.............................................................................................................................................................................. Find igs database================================================ Query_seq: TF0896:TF0897|TF0896:TF0897:hypothetical protein:hypothetical protein:->->:945274..945498 225 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Intra-Species Hit: Count: 1 Min: 1 Max: 225 Len: 225 Subject: tfor_TF0896_TF0897|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[945274,945498]|225 HSP 1 e-value: 1.0E-124 bit: 446.0 Len: 225 Query Start:1 Query End:225 Subject Strand: POSITIVE Subject Start: 1 Subject End: 225 tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa tgaatcgcgccaagcaggatacagtgcatccaatgcaactaattcgttgcagcatatttgtttaaatttcagaaaattgaccaatattgccatttcatcgtattcaggcattttcttggattgctcgaatatttcgcataatctctcctcatccctactactcgtgcaaccgaagcatagaagcaaggttaaaccaagaaaaaagatgagtcgtattttcatgaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUCGCGCCAAGCAGGAUACAGUGCAUCCAAUGCAACUAAUUCGUUGCAGCAUAUUUGUUUAAAUUUCAGAAAAUUGACCAAUAUUGCCAUUUCAUCGUAUUCAGGCAUUUUCUUGGAUUGCUCGAAUAUUUCGCAUAAUCUCUCCUCAUCCCUACUACUCGUGCAACCGAAGCAUAGAAGCAAGGUUAAACCAAGAAAAAAGAUGAGUCGUAUUUUCAUGAA ......((.....)).((((.......))))..((((((......))))))................((((((((((((((((....((((...............))))(((((((((..(((...........)))...............(((.((.((.((((.......)))))).))..))).....)))))))))....)).)))).)))))).)))) (-43.56) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAUGAAAAUACGACUCAUCUUUUUUCUUGGUUUAACCUUGCUUCUAUGCUUCGGUUGCACGAGUAGUAGGGAUGAGGAGAGAUUAUGCGAAAUAUUCGAGCAAUCCAAGAAAAUGCCUGAAUACGAUGAAAUGGCAAUAUUGGUCAAUUUUCUGAAAUUUAAACAAAUAUGCUGCAACGAAUUAGUUGCAUUGGAUGCACUGUAUCCUGCUUGGCGCGAUUCA ....((((....(..(((((((((...((((...(((((..((......))...)))))..))))....)))))))))..)......((((......((((((...((((.....((((...............))))...)))).............................((((((......))))))..((((((...)))))).)))))))))).)))) (-54.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 356 169 122 210 171 tfor:TF2158|5end_conserved_hypothetical_protein_2333857..2334087_POSITIVE 336 167 121 75 25 tfor:TF2979|5end_possible_outer_membrane__protein_3190778..3191008_POSITIVE 330 50 1 53 2 tfor:TF0806|5end_conserved_hypothetical_protein_863575..863805_POSITIVE 317 50 6 64 6 tfor:TF2564|5end_50S_ribosomal_protein_L14_2739604..2739834_POSITIVE 315 50 7 192 148 tfor:TF1252|5end_phosphofructokinase;_pyrophosphate-fructose_6-phosphate_1-phosphotransferase_(probable_beta_subunit)_1334361..1334591_POSITIVE 307 48 5 87 44 tfor:TF0496|5end_conserved_hypothetical_protein_522332..522562_POSITIVE 305 127 89 167 122 tfor:TF0719|5end_hypothetical_protein_769798..770028_POSITIVE 304 168 123 229 189 tfor:TF0651|5end_hypothetical_protein_693338..693568_POSITIVE 299 48 4 138 90 tfor:TF0812|5end_conserved_hypothetical_protein_872087..872317_POSITIVE 299 189 146 102 56 tfor:TF0265|5end_conserved_hypothetical_protein,_Rhs_family_293279..293509_POSITIVE 297 140 92 209 162 tfor:TF0696|5end_3-oxoacyl-(acyl-carrier-protein)_reductase_739936..740166_POSITIVE 296 193 151 102 60 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 296 189 144 218 143 tfor:TF1035|5end_iron(III)_ABC_transporter,_periplasmic-binding_protein_1095910..1096140_POSITIVE 296 173 131 201 158 tfor:TF0594|5end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_626971..627201_POSITIVE 293 50 6 75 34 tfor:TF1464|5end_conserved_hypothetical_protein_1553467..1553697_POSITIVE 292 179 135 53 17 tfor:TF1349|5end_conserved_hypothetical_protein;_possible_prophage_maintanence_or_virulance_related_1429054..1429284_POSITIVE 292 176 131 57 9 tfor:TF0107|5end_ion_channel_protein_113913..114143_POSITIVE 289 200 152 134 84 tfor:TF3152|5end_hypothetical_protein_3386690..3386920_POSITIVE 287 177 132 48 2 tfor:TF2876|5end_cytosine_deaminase_3065144..3065374_POSITIVE 287 188 142 224 165 tfor:TF2789|5end_enoyl-[acyl-carrier-protein]_reductase_2972431..2972661_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 167 121 79 29 tfor:TF2978|3end_conserved_hypothetical_protein_3190862..3191012_POSITIVE 320 167 122 109 61 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 318 136 94 84 38 tfor:TF2189|3end_conserved_hypothetical_protein_2364884..2365034_POSITIVE 317 50 6 59 1 tfor:TF2563|3end_30S_ribosomal_protein_S17_2739679..2739829_POSITIVE 296 193 151 92 50 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 296 189 144 129 54 tfor:TF1034|3end_conserved_hypothetical_protein_1095901..1096051_POSITIVE 290 47 4 151 104 tfor:TF0813|3end_glycosyl_hydrolase,_secreted_872181..872331_POSITIVE 289 200 152 69 19 tfor:TF3151|3end_glyoxalase_family_protein_3386705..3386855_POSITIVE 287 177 132 48 2 tfor:TF2874|3end_conserved_hypothetical_protein_3065224..3065374_POSITIVE 281 50 5 147 103 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE 279 56 12 41 7 tfor:TF2592|3end_conserved_hypothetical_protein_2762807..2762957_POSITIVE 275 176 135 102 64 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 275 175 131 91 50 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 274 66 27 96 58 tfor:TF2771|3end_undecaprenol_kinase,_bacitracin_resistance_protein_2957448..2957598_POSITIVE 273 109 80 43 9 tfor:TF1643|3end_conserved_hypothetical_protein_1752718..1752868_POSITIVE 271 144 112 138 100 tfor:TF1988|3end_hypothetical_protein_2137481..2137631_POSITIVE 270 54 23 43 3 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 264 120 77 121 72 tfor:TF1697|3end_mobilizable_transposon,_excision_protein_1819293..1819443_POSITIVE 264 136 96 118 73 tfor:TF1409|3end_outer_membrane_protein_TolC_1487079..1487229_POSITIVE 261 168 122 113 67 tfor:TF1350|3end_possible_transcriptional_regulator_1430636..1430786_POSITIVE