Origin IGS: taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaaatggcagaccgttttaatccgtctgcggtagagcaagccctttatcaacactgggaagaaagcggttattttaaaccgtcggaagaggcgaatgcgccgagttattctattgccattccgccgccgaatgtgacggggagtctgcac .........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 gtgcagactccccgtcacattcggcggcggaatggcaatagaataactcggcgcattcgcctcttccgacggtttaaaataaccgctttcttcccagtgttgataaagggcttgctctaccgcagacggattaaaacggtctgccatttcgaatttttgtgtcatttatattttctctttggtagggtgcaatttggtgcaccttttgattaaaatgagaacagtgcagcaagttgcactttatggaatta Mask Tandem Repeat Region ================================================ taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaaatggcagaccgttttaatccgtctgcggtagagcaagccctttatcaacactgggaagaaagcggttattttaaaccgtcggaagaggcgaatgcgccgagttattctattgccattccgccgccgaatgtgacggggagtctgcac Find is-nt database================================================ Query_seq: AA01723:AA01724|AA01723:AA01724:conserved hypothetical protein:valyl-tRNA synthetase:->->:1164335..1164585 251 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaaatggcagaccgttttaatccgtctgcggtagagcaagccctttatcaacactgggaagaaagcggttattttaaaccgtcggaagaggcgaatgcgccgagttattctattgccattccgccgccgaatgtgacggggagtctgcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01723:AA01724|AA01723:AA01724:conserved hypothetical protein:valyl-tRNA synthetase:->->:1164335..1164585 251 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaaatggcagaccgttttaatccgtctgcggtagagcaagccctttatcaacactgggaagaaagcggttattttaaaccgtcggaagaggcgaatgcgccgagttattctattgccattccgccgccgaatgtgacggggagtctgcac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 105 Max: 251 Len: 147 Subject: gi|89110974|ref|AP_004754.1| valyl-tRNA synthetase [Escherichia coli W3110] HSP 1 e-value: 8.0E-13 bit: 68.9 Len: 147 Query Start:105 Query End:251 Subject Strand: null Subject Start: 1 Subject End: 49 ........................................................................................................ M A D R F N P S A V E Q A L Y Q H W E E S G Y F K P S E E A N A P S Y S I A I P P P N V T G S L H ........................................................................................................ M E K T Y N P Q D I E Q P L Y E H W E K Q G Y F K P N G D E S Q E S F C I M I P P P N V T G S L H Find nr database================================================ Query_seq: AA01723:AA01724|AA01723:AA01724:conserved hypothetical protein:valyl-tRNA synthetase:->->:1164335..1164585 251 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 8 End: 118 ....... M K C N L L H C S H F N Q K V H Q I A P Y Q R E N I N D T K I R N G R P F ..................................................................................................................................... Protein_Len: 55 Strand: + Start: 87 End: 251 ...................................................................................... M T Q K F E M A D R F N P S A V E Q A L Y Q H W E E S G Y F K P S E E A N A P S Y S I A I P P P N V T G S L H Protein_Len: 60 Strand: - Start: 42 End: 251 ......................................... F L F Y L H C L F E F H C V T K I R R R Y L L G K I L V P F F A T I K F R R F L R I R R T I R N G N R R R I H R P T Q M Protein_Len: 35 Strand: - Start: 2 End: 106 . I G Y L A V Q Q V T R M K I L L H V L N C G V L S F I Y I V C F N S M ................................................................................................................................................. taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 76 HP_score: -7.0 Tail_Score: -4.42238 Start: 49 End: 66 Full_Region: ttttctctttggtag ggtgca atttgg tgcacc ttttgattaaaatga ................................................ggtgcaatttggtgcacc......................................................................................................................................................................................... Find igs database================================================ Query_seq: AA01723:AA01724|AA01723:AA01724:conserved hypothetical protein:valyl-tRNA synthetase:->->:1164335..1164585 251 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: aact_AA01723_AA01724|conserved hypothetical protein:valyl-tRNA synthetase|POSITIVE:POSITIVE|[1164335,1164585]|251 HSP 1 e-value: 3.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaa................................................................................................................................................... taattccataaagtgcaacttgctgcactgttctcattttaatcaaaaggtgcaccaaattgcaccctaccaaagagaaaatataaatgacacaaaaattcgaa................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCCAUAAAGUGCAACUUGCUGCACUGUUCUCAUUUUAAUCAAAAGGUGCACCAAAUUGCACCCUACCAAAGAGAAAAUAUAAAUGACACAAAAAUUCGAA ......(((..((((((......)))))).(((((..(((....))).((((((......))))))........))))).......)))............... (-19.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCGAAUUUUUGUGUCAUUUAUAUUUUCUCUUUGGUAGGGUGCAAUUUGGUGCACCUUUUGAUUAAAAUGAGAACAGUGCAGCAAGUUGCACUUUAUGGAAUUA ...(((....((((.....))))..)))..(((.(((((((((((((((.(((((.((((.((....)).))))..))))).))))))))))))))).)))... (-31.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 70 21 165 120 aact:AA01175|5end_6-phosphogluconate_dehydrogenase_804864..805094_POSITIVE 277 77 43 208 170 aact:AA00698|5end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477191..477421_POSITIVE 270 70 24 220 181 aact:AA02260|5end_pseudouridylate_synthase_I_1537067..1537297_POSITIVE 268 67 23 153 94 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 265 52 16 79 49 aact:AA02035|5end_translation_initiation_factor_IF-3_1386349..1386579_POSITIVE 264 57 15 161 120 aact:AA01995|5end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355120..1355350_POSITIVE 258 34 2 219 188 aact:AA01336|5end_hypothetical_protein_904056..904286_POSITIVE 250 56 12 73 26 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 248 53 11 184 147 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 245 57 12 229 183 aact:AA02811|5end_hypothetical_protein_1979582..1979812_POSITIVE 241 54 22 170 128 aact:AA02824|5end_conserved_hypothetical_protein_1986131..1986361_POSITIVE 238 70 23 37 1 aact:AA00614|5end_ribonuclease_HII_(RNase_HII)_419890..420120_POSITIVE 236 90 48 112 71 aact:AA00732|5end_citrate_lyase_ligase_501343..501573_POSITIVE 233 67 21 112 76 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 232 40 10 159 121 aact:AA01123|5end_possible_hemolysin;_membrane_protein_770318..770548_POSITIVE 229 39 12 36 4 aact:AA02696|5end_formate_hydrogenlyase_maturation_protein_1879476..1879706_POSITIVE 228 53 17 143 109 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 228 68 21 136 77 aact:AA01532|5end_hypothetical_protein_1028771..1029001_POSITIVE 228 68 21 70 11 aact:AA01531|5end_hypothetical_protein_1028705..1028935_POSITIVE 227 58 14 70 24 aact:AA01891|5end_pyridoxine_kinase_1275922..1276152_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 70 21 144 99 aact:AA01174|3end_hypothetical_protein_804923..805073_POSITIVE 277 77 43 111 73 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 277 77 43 43 5 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 263 53 13 69 32 aact:AA01631|3end_dihydrodipicolinate_reductase_1103915..1104065_POSITIVE 261 70 22 41 1 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE 257 56 11 147 97 aact:AA01495|3end_probable_oxidoreductase_1004927..1005077_POSITIVE 250 56 12 55 8 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 248 53 11 48 11 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 245 57 12 91 45 aact:AA02810|3end_glycine_hydroxymethyltransferase;_serine_hydroxymethyltransferase_1979524..1979674_POSITIVE 245 55 13 70 24 aact:AA01127|3end_energy_transducer_protein_773520..773670_POSITIVE 242 54 11 62 20 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 241 54 22 128 86 aact:AA02823|3end_exodeoxyribonuclease_V_gamma_chain_1986169..1986319_POSITIVE 239 72 31 58 21 aact:AA02480|3end_excinuclease_ABC_subunit_B_1718442..1718592_POSITIVE 236 90 48 71 30 aact:AA00730|3end_hypothetical_protein_501382..501532_POSITIVE 233 67 21 96 60 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 232 40 10 81 43 aact:AA01120|3end_conserved_hypothetical_protein_770320..770470_POSITIVE 228 53 17 66 32 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 228 65 21 117 78 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 227 54 11 145 90 aact:AA01685|3end_molybdenum_ABC_transporter,_ATP-binding_protein_1137916..1138066_POSITIVE 226 46 3 131 90 aact:AA02602|3end_conserved_hypothetical_protein_1814302..1814452_POSITIVE