Origin IGS: aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa .........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 tttttacctccataattataaaatcaataaattaattaaatttaatatttaatttcattaagaagttaaatatcatttccttttccttacactgttataatatcatacaggataaaatatgtcaacatttttttgtaataattataaaaaaaatataaaaatatattgaaaataaaagaaaatatttttctatttttgtataaataaagtaaaaaaggtaaagaatttttccttacctttaaaatttaattatatttttaactt Mask Tandem Repeat Region ================================================ aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Find is-nt database================================================ Query_seq: FN1078:FN1079|FN1078:FN1079:Hypothetical exported 24-amino acid repeat protein:Neutrophil-activating protein A:->->:1724839..1725102 264 aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1078:FN1079|FN1078:FN1079:Hypothetical exported 24-amino acid repeat protein:Neutrophil-activating protein A:->->:1724839..1725102 264 aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1078:FN1079|FN1078:FN1079:Hypothetical exported 24-amino acid repeat protein:Neutrophil-activating protein A:->->:1724839..1725102 264 aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 39 End: 140 ...................................... M L Y L F Y F I Y T K I E K Y F L L F S I Y F Y I F F I I I T K K C ............................................................................................................................ Protein_Len: 52 Strand: + Start: 20 End: 175 ................... M L K V R K N S L P F L L Y L Y K N R K I F S F I F N I F L Y F F Y N Y Y K K M L T Y F I L Y D I I T V ......................................................................................... Protein_Len: 37 Strand: - Start: 110 End: 220 ............................................................................................................. I K K I I I V F F H Q C I K D Q I I N Y C H L S F S I I N L K K I F N F M ............................................ aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 91 Start: 139 End: 168 ..........................................................................................................................................GTTGACATATTTTATCCTGTATGATATTAT................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 57 HP_score: -4.4 Tail_Score: -4.27062 Start: 190 End: 222 Full_Region: taaattaattaaatt taatatttaatttc attaa gaagttaaatatca tttccttttccttac .............................................................................................................................................................................................taatatttaatttcattaagaagttaaatatca.......................................... TransTerm Strand: - Conf: 56 HP_score: -6.1 Tail_Score: -3.11579 Start: 193 End: 219 Full_Region: attaattaaatttaa tatttaatttc attaa gaagttaaata tcatttccttttcct ................................................................................................................................................................................................tatttaatttcattaagaagttaaata............................................. TransTerm Strand: + Conf: 42 HP_score: -2.4 Tail_Score: -3.73435 Start: 213 End: 229 Full_Region: AACTTCTTAATGAAA TTAAAT ATTAA ATTTAA TTAATTTATTGATTT ....................................................................................................................................................................................................................TTAAATATTAAATTTAA................................... TransTerm Strand: + Conf: 43 HP_score: -2.4 Tail_Score: -3.78909 Start: 221 End: 237 Full_Region: AATGAAATTAAATAT TAAATT TAATT AATTTA TTGATTTTATAATTA ............................................................................................................................................................................................................................TAAATTTAATTAATTTA........................... Find igs database================================================ Query_seq: FN1078:FN1079|FN1078:FN1079:Hypothetical exported 24-amino acid repeat protein:Neutrophil-activating protein A:->->:1724839..1725102 264 aagttaaaaatataattaaattttaaaggtaaggaaaaattctttaccttttttactttatttatacaaaaatagaaaaatattttcttttattttcaatatatttttatattttttttataattattacaaaaaaatgttgacatattttatcctgtatgatattataacagtgtaaggaaaaggaaatgatatttaacttcttaatgaaattaaatattaaatttaattaatttattgattttataattatggaggtaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: NC_003454_FN1078_FN1079|Hypothetical exported 24-amino acid repeat protein:Neutrophil-activating protein A|POSITIVE:POSITIVE|[1724839,1725102]|264 HSP 1 e-value: 2.0E-19 bit: 97.6 Len: 49 Query Start:138 Query End:186 Subject Strand: POSITIVE Subject Start: 138 Subject End: 186 .........................................................................................................................................tgttgacatattttatcctgtatgatattataacagtgtaaggaaaagg.............................................................................. .........................................................................................................................................tgttgacatattttatcctgtatgatattataacagtgtaaggaaaagg.............................................................................. HSP 2 e-value: 2.0E-10 bit: 67.9 Len: 34 Query Start:1 Query End:34 Subject Strand: POSITIVE Subject Start: 1 Subject End: 34 aagttaaaaatataattaaattttaaaggtaagg...................................................................................................................................................................................................................................... aagttaaaaatataattaaattttaaaggtaagg...................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUUAAAAAUAUAAUUAAAUUUUAAAGGUAAGGAAAAAUUCUUUACCUUUUUUACUUUAUUUAUACAAAAAUAGAAAAAUAUUUUCUUUUAUUUUCAAUAUAUUUUUAUAUUUUUUUUAUAAUUAUUACAAAAAAAUGUUGACAUAUUUUAUCCUGUAUGAUAUUAUAACAGUGUAAGGAAAAGG ........................(((((((((((.....)))))))))))....((((.(((((((.((((((.((((((((.................)))))))).))))))..(((((((...((((..(((((((....)))))))....))))....)))))))..)))))))..)))). (-28.93) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCUUUUCCUUACACUGUUAUAAUAUCAUACAGGAUAAAAUAUGUCAACAUUUUUUUGUAAUAAUUAUAAAAAAAAUAUAAAAAUAUAUUGAAAAUAAAAGAAAAUAUUUUUCUAUUUUUGUAUAAAUAAAGUAAAAAAGGUAAAGAAUUUUUCCUUACCUUUAAAAUUUAAUUAUAUUUUUAACUU ........(((..((((...........))))..)))............((((((((((.....))))))))))...(((((((((((((((.(((...(((((((......))))))).)))............((((((((.((.....)).))))))))....))))).)))))))))).... (-25.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 210 88 41 155 103 NC_003454:FN0358|5end_ATP_synthase_subunit_B_989674..989904_NEGATIVE 205 69 25 150 104 NC_003454:FN1228|5end_hypothetical_protein_1886190..1886420_NEGATIVE 197 121 82 76 26 NC_003454:FN1370|5end_Endonuclease_2019349..2019579_NEGATIVE 197 81 42 68 28 NC_003454:FN1107|5end_Acetyltransferase_1751961..1752191_POSITIVE 192 113 80 191 150 NC_003454:FN1954|5end_Glycerophosphoryl_diester_phosphodiesterase_459992..460222_NEGATIVE 185 63 26 228 191 NC_003454:FN0698|5end_DNA_integration/recombination/invertion_protein_1356611..1356841_POSITIVE 183 121 82 147 97 NC_003454:FN1585|5end_hypothetical_protein_97394..97624_NEGATIVE 182 88 41 154 107 NC_003454:FN0007|5end_glucose-inhibited_division_protein_A_645938..646168_POSITIVE 174 58 11 93 41 NC_003454:FN0716|5end_Phophatidylinositol-4-phosphate_5-kinase_1373969..1374199_POSITIVE 174 75 35 138 90 NC_003454:FN0500|5end_hypothetical_protein_1148943..1149173_POSITIVE 173 127 83 141 100 NC_003454:FN0878|5end_Transcriptional_regulator,_GntR_family_1539794..1540024_NEGATIVE 172 125 81 153 105 NC_003454:FN0671|5end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1326616..1326846_POSITIVE 171 115 87 145 117 NC_003454:FN0232|5end_hypothetical_protein_858018..858248_NEGATIVE 168 59 11 94 34 NC_003454:FN1649|5end_Oligopeptide_transport_ATP-binding_protein_oppD_144115..144345_NEGATIVE 167 127 83 79 36 NC_003454:FN0836|5end_hypothetical_protein_1498802..1499032_POSITIVE 166 99 56 191 140 NC_003454:FN1374|5end_Transcriptional_regulator_2022301..2022531_NEGATIVE 166 174 136 150 114 NC_003454:FN0849|5end_8-amino-7-oxononanoate_synthase_1507767..1507997_POSITIVE 165 113 72 136 90 NC_003454:FN1219|5end_hypothetical_protein_1878566..1878796_POSITIVE 165 118 73 67 23 NC_003454:FN1011|5end_MGPA_protein_1665660..1665890_NEGATIVE 164 63 26 107 59 NC_003454:FN0991|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1645810..1646040_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 217 51 25 66 40 NC_003454:FN1078|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1724778..1724928_POSITIVE 205 69 25 80 34 NC_003454:FN1229|3end_hypothetical_protein_1886260..1886410_NEGATIVE 201 160 124 49 14 NC_003454:FN1526|3end_Fusobacterium_outer_membrane_protein_family_31752..31902_NEGATIVE 197 121 82 70 20 NC_003454:FN1371|3end_Ribonuclease_HII_2019355..2019505_NEGATIVE 192 79 38 138 95 NC_003454:FN2098|3end_MRP-family_nucleotide-binding_protein_607373..607523_NEGATIVE 183 121 82 126 76 NC_003454:FN1586|3end_O-succinylbenzoate-CoA_synthase_97415..97565_NEGATIVE 182 88 41 88 41 NC_003454:FN0006|3end_tRNA_modification_GTPase_645952..646102_POSITIVE 174 58 11 100 48 NC_003454:FN0715|3end_hypothetical_protein_1374056..1374206_POSITIVE 171 119 83 143 110 NC_003454:FN1448|3end_Hypothetical_cytosolic_protein_2117403..2117553_NEGATIVE 171 115 87 99 71 NC_003454:FN0233|3end_hypothetical_protein_858064..858214_NEGATIVE 168 59 11 91 31 NC_003454:FN1650|3end_Oligopeptide_transport_system_permease_protein_oppC_144118..144268_NEGATIVE 167 127 83 62 19 NC_003454:FN0835|3end_hypothetical_protein_1498865..1499015_POSITIVE 167 59 18 140 100 NC_003454:FN0586|3end_Two-component_sensor_kinase_czcS_1241857..1242007_POSITIVE 166 174 136 66 30 NC_003454:FN0848|3end_hypothetical_protein_1507763..1507913_POSITIVE 165 118 73 47 3 NC_003454:FN1012|3end_HPr_kinase/phosphorylase_1665680..1665830_NEGATIVE 163 154 115 120 82 NC_003454:FN0836|3end_hypothetical_protein_1499178..1499328_POSITIVE 161 113 74 104 59 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE 161 55 13 133 92 NC_003454:FN0772|3end_Flavodoxin_1429283..1429433_POSITIVE 160 118 79 142 101 NC_003454:FN0107|3end_Sodium/proline_symporter_743240..743390_POSITIVE 159 78 31 113 63 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE