Origin IGS: ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta .........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 taaaatttgtccctttacacaaattttaataatgcgatttttaccacgcaaaaaattcttcttggtttataagcagttattttatgtcaataattcaagtaaaaaatttagtacttgaattttcacatccaacacattatcttgtgcaaaatttttataacgcaactatatgttgtgtttttcatatattttagagaaataggtatcttcc Mask Tandem Repeat Region ================================================ ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Find is-nt database================================================ Query_seq: AA01637:AA01639|AA01637:AA01639:ribonucleoside diphosphate reductase:hypothetical protein:->->:1109065..1109275 211 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01637:AA01639|AA01637:AA01639:ribonucleoside diphosphate reductase:hypothetical protein:->->:1109065..1109275 211 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01637:AA01639|AA01637:AA01639:ribonucleoside diphosphate reductase:hypothetical protein:->->:1109065..1109275 211 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 97 End: 207 ................................................................................................ T S F K K S S N N V Y F L Q K Y V L F F K K R P L F R M I L I Q T F P C M .... Protein_Len: 41 Strand: - Start: 21 End: 143 .................... F I H F V C C I T A N Y F N Q V L Y H T P H S F E L V L N K V Q I I S M F Y S S M .................................................................... Protein_Len: 32 Strand: - Start: 2 End: 97 . F I G I E R F Y I F F V V Y L Q T I F I K C L I I H Q I H F N M .................................................................................................................. ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta 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================================================ ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 72 HP_score: -4.4 Tail_Score: -4.91573 Start: 35 End: 51 Full_Region: gcaaaatttttataa cgcaac tatat gttgtg tttttcatatatttt ..................................cgcaactatatgttgtg................................................................................................................................................................ TransTerm Strand: + Conf: 42 HP_score: -2.4 Tail_Score: -3.12847 Start: 66 End: 79 Full_Region: GTTATAAAAATTTTG CACA AGATAA TGTG TTGGATGTGAAAATT .................................................................CACAAGATAATGTG.................................................................................................................................... TransTerm Strand: - Conf: 51 HP_score: -2.0 Tail_Score: -4.13767 Start: 93 End: 118 Full_Region: attttatgtcaataa ttcaagta aaaaatttag tacttgaa ttttcacatccaaca ............................................................................................ttcaagtaaaaaatttagtacttgaa............................................................................................. Find igs database================================================ Query_seq: AA01637:AA01639|AA01637:AA01639:ribonucleoside diphosphate reductase:hypothetical protein:->->:1109065..1109275 211 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Intra-Species Hit: Count: 1 Min: 1 Max: 211 Len: 211 Subject: aact_AA01637_AA01639|ribonucleoside diphosphate reductase:hypothetical protein|POSITIVE:POSITIVE|[1109065,1109275]|211 HSP 1 e-value: 1.0E-116 bit: 418.0 Len: 211 Query Start:1 Query End:211 Subject Strand: POSITIVE Subject Start: 1 Subject End: 211 ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta ggaagatacctatttctctaaaatatatgaaaaacacaacatatagttgcgttataaaaattttgcacaagataatgtgttggatgtgaaaattcaagtactaaattttttacttgaattattgacataaaataactgcttataaaccaagaagaattttttgcgtggtaaaaatcgcattattaaaatttgtgtaaagggacaaatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAGAUACCUAUUUCUCUAAAAUAUAUGAAAAACACAACAUAUAGUUGCGUUAUAAAAAUUUUGCACAAGAUAAUGUGUUGGAUGUGAAAAUUCAAGUACUAAAUUUUUUACUUGAAUUAUUGACAUAAAAUAACUGCUUAUAAACCAAGAAGAAUUUUUUGCGUGGUAAAAAUCGCAUUAUUAAAAUUUGUGUAAAGGGACAAAUUUUA ((......))....(((((.............(((.((((.....)))).))).........(((((((((((((((((....((((.((((((((((((..........)))))))))).)).)))).................((((.((((....))))...))))......))))))))).....)))))))))))))......... (-39.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUUGUCCCUUUACACAAAUUUUAAUAAUGCGAUUUUUACCACGCAAAAAAUUCUUCUUGGUUUAUAAGCAGUUAUUUUAUGUCAAUAAUUCAAGUAAAAAAUUUAGUACUUGAAUUUUCACAUCCAACACAUUAUCUUGUGCAAAAUUUUUAUAACGCAACUAUAUGUUGUGUUUUUCAUAUAUUUUAGAGAAAUAGGUAUCUUCC ((((((((((........)))))))))).......((....((((..(((.(((((.((.((((.....)))).))..))))).))).....(((((((((..........)))))))))((((........((((......)))).(((((......((((((((.....))))))))........))))).))))....))))...)). (-35.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 208 165 70 27 aact:AA00695|5end_uridine_kinase_475033..475263_POSITIVE 256 197 160 60 18 aact:AA02109|5end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436563..1436793_POSITIVE 250 177 131 87 42 aact:AA00362|5end_30S_ribosomal_protein_S3_244847..245077_POSITIVE 249 196 156 181 145 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 237 88 63 35 12 aact:AA00516|5end_autoinducer-2_production_protein_355931..356161_POSITIVE 225 92 62 97 72 aact:AA01390|5end_LexA_repressor_937059..937289_POSITIVE 225 178 131 169 128 aact:AA00179|5end_conserved_hypothetical_protein_(possible_outer_membrane_protein)_126260..126490_POSITIVE 219 210 163 81 24 aact:AA00265|5end_transcription_termination_factor_185307..185537_POSITIVE 218 179 135 115 78 aact:AA01158|5end_ribosome_associated_heat_shock_protein_15_homolog_792399..792629_POSITIVE 205 96 59 170 132 aact:AA02932|5end_lytic_murein_transglycosylase_A_2052349..2052579_POSITIVE 203 202 163 79 28 aact:AA01258|5end_TRK_system_potassium_uptake_protein_852891..853121_POSITIVE 203 202 163 169 133 aact:AA00305|5end_conserved_hypothetical_protein_206741..206971_POSITIVE 202 83 45 207 166 aact:AA02586|5end_lipid_A_biosynthesis_lauroyl_acyltransferase_1799207..1799437_POSITIVE 200 181 142 181 134 aact:AA01507|5end_conserved_hypothetical_protein_1012433..1012663_POSITIVE 197 115 76 201 155 aact:AA01211|5end_ATP-dependent_Clp_protease,_ATPase_subunit_827035..827265_POSITIVE 197 115 76 69 23 aact:AA01210|5end_hypothetical_protein_826903..827133_POSITIVE 196 79 34 159 114 aact:AA00646|5end_2-dehydro-3-deoxyphosphooctonate_aldolase_441474..441704_POSITIVE 195 207 163 59 21 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 195 207 163 92 48 aact:AA01215|5end_aspartate-semialdehyde_dehydrogenase_830524..830754_POSITIVE 195 89 49 191 153 aact:AA00420|5end_tRNA/rRNA_methyltransferase_284953..285183_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 208 165 57 14 aact:AA00694|3end_dCTP_deaminase_(deoxycytidine_triphosphate_deaminas)_475100..475250_POSITIVE 256 197 160 60 18 aact:AA02108|3end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436643..1436793_POSITIVE 250 177 131 70 25 aact:AA00361|3end_50S_ribosomal_protein_L16_244910..245060_POSITIVE 249 196 156 37 1 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 225 92 62 116 91 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 225 178 131 142 101 aact:AA00177|3end_conserved_hypothetical_protein_126313..126463_POSITIVE 218 179 135 44 7 aact:AA01156|3end_chaperonin_heat_shock_protein_33_homolog_792408..792558_POSITIVE 203 170 133 117 78 aact:AA02199|3end_hypothetical_protein_1497901..1498051_POSITIVE 203 202 163 57 6 aact:AA01256|3end_hypothetical_protein_852949..853099_POSITIVE 197 115 76 93 47 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE 196 86 50 128 86 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 195 89 49 69 31 aact:AA00419|3end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284911..285061_POSITIVE 195 94 64 133 92 aact:AA00188|3end_conserved_hypothetical_protein_133156..133306_POSITIVE 194 57 24 123 88 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 193 79 40 115 75 aact:AA02757|3end_histidinol-phosphate_aminotransferase_2_1931808..1931958_POSITIVE 193 200 156 142 100 aact:AA02516|3end_ferric_uptake_regulation_protein_1749781..1749931_POSITIVE 191 101 64 69 27 aact:AA00518|3end_conserved_hypothetical_protein_357213..357363_POSITIVE 189 190 151 61 25 aact:AA01158|3end_ribosome_associated_heat_shock_protein_15_homolog_792892..793042_POSITIVE 188 179 134 62 4 aact:AA01358|3end_conserved_hypothetical_protein_920387..920537_POSITIVE 187 204 163 85 38 aact:AA01266|3end_hypothetical_protein_862251..862401_POSITIVE