Origin IGS: tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt .........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 acaacttgcaattatttttttatttttcatttttcctccttattaaactaaatcataagatatcactttattttactatttttagatgaattttatatgaattaacttttaaaaattatctaataatctaatattaattagcaattctataaaatattgtaaagtattgtatcattaaagaagagctttttctatcttcaaa Mask Tandem Repeat Region ================================================ tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Find is-nt database================================================ Query_seq: FN1264:FN1265|FN1264:FN1265:hypothetical protein:Outer membrane protein:->->:1921269..1921470 202 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1264:FN1265|FN1264:FN1265:hypothetical protein:Outer membrane protein:->->:1921269..1921470 202 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1264:FN1265|FN1264:FN1265:hypothetical protein:Outer membrane protein:->->:1921269..1921470 202 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Predict ORF larger than 30AA ================================================ tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt 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: 81 Start: 8 End: 37 .......ATAGAAAAAGCTCTTCTTTAATGATACAAT..................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1264:FN1265|FN1264:FN1265:hypothetical protein:Outer membrane protein:->->:1921269..1921470 202 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggaggaaaaatgaaaaataaaaaaataattgcaagttgt Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: NC_003454_FN1264_FN1265|hypothetical protein:Outer membrane protein|POSITIVE:POSITIVE|[1921269,1921470]|202 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 168 Query Start:1 Query End:168 Subject Strand: POSITIVE Subject Start: 1 Subject End: 168 tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggagg.................................. tttgaagatagaaaaagctcttctttaatgatacaatactttacaatattttatagaattgctaattaatattagattattagataatttttaaaagttaattcatataaaattcatctaaaaatagtaaaataaagtgatatcttatgatttagtttaataaggagg.................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGAAGAUAGAAAAAGCUCUUCUUUAAUGAUACAAUACUUUACAAUAUUUUAUAGAAUUGCUAAUUAAUAUUAGAUUAUUAGAUAAUUUUUAAAAGUUAAUUCAUAUAAAAUUCAUCUAAAAAUAGUAAAAUAAAGUGAUAUCUUAUGAUUUAGUUUAAUAAGGAGG .(((((((.(((......))))))))))............((((..((((((((.......(((((....)))))....((((((((((((.................)))))).)))))).....))))))))..))))..((((((...........))))))... (-20.63) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCUCCUUAUUAAACUAAAUCAUAAGAUAUCACUUUAUUUUACUAUUUUUAGAUGAAUUUUAUAUGAAUUAACUUUUAAAAAUUAUCUAAUAAUCUAAUAUUAAUUAGCAAUUCUAUAAAAUAUUGUAAAGUAUUGUAUCAUUAAAGAAGAGCUUUUUCUAUCUUCAAA ........................(((((.(((((((..((......((((((((.(((((...(......)...))))).))))))))....(((((....))))).............))..)))))))...)))))......(((((..........)))))... (-21.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 46 5 69 29 NC_003454:FN0382|5end_hypothetical_protein_1013257..1013487_POSITIVE 188 92 52 78 35 NC_003454:FN1038|5end_Transporter_1690075..1690305_POSITIVE 182 136 95 166 128 NC_003454:FN1385|5end_hypothetical_protein_2040130..2040360_NEGATIVE 181 113 73 216 173 NC_003454:FN0927|5end_hypothetical_protein_1582352..1582582_NEGATIVE 178 130 86 96 47 NC_003454:FN1394|5end_Signal_recognition_particle_associated_protein_2051166..2051396_NEGATIVE 176 146 102 132 87 NC_003454:FN1165|5end_D-galactose-binding_protein_1822898..1823128_POSITIVE 164 33 4 143 119 NC_003454:FN2057|5end_hypothetical_protein_565624..565854_NEGATIVE 162 113 78 211 170 NC_003454:FN1251|5end_High-affinity_iron_permease_1908008..1908238_POSITIVE 162 69 28 58 19 NC_003454:FN0879|5end_ABC_transporter_integral_membrane_protein_1540946..1541176_NEGATIVE 159 79 33 116 71 NC_003454:FN1679|5end_LPS_biosynthesis_protein_WbpG_175711..175941_NEGATIVE 157 145 107 169 118 NC_003454:FN0194|5end_Dipeptide_transport_system_permease_protein_dppC_819839..820069_POSITIVE 156 87 44 71 16 NC_003454:FN0155|5end_hypothetical_protein_783141..783371_POSITIVE 156 76 52 88 56 NC_003454:FN2002|5end_Permease_503563..503793_NEGATIVE 155 92 66 165 138 NC_003454:FN1057|5end_Diamine_acetyltransferase_1704326..1704556_POSITIVE 155 69 21 64 20 NC_003454:FN0958|5end_hypothetical_protein_1614297..1614527_NEGATIVE 155 138 98 199 158 NC_003454:FN0943|5end_Sensory_Transduction_Protein_Kinase_1596800..1597030_POSITIVE 154 52 18 213 185 NC_003454:FN0817|5end_ABC_transporter_ATP-binding_protein_1476448..1476678_POSITIVE 153 44 16 57 29 NC_003454:FN1740|5end_ATP_synthase_subunit_K_238400..238630_NEGATIVE 153 78 31 142 90 NC_003454:FN1575|5end_Hypothetical_cytosolic_protein_86495..86725_NEGATIVE 151 50 4 154 108 NC_003454:FN1228|5end_hypothetical_protein_1886190..1886420_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 185 107 61 122 73 NC_003454:FN0146|3end_hypothetical_protein_775330..775480_POSITIVE 182 136 95 108 70 NC_003454:FN1386|3end_SWF/SNF_family_helicase_2040188..2040338_NEGATIVE 169 19 3 58 42 NC_003454:FN0048|3end_4-nitrophenylphosphatase_685285..685435_NEGATIVE 164 33 4 56 32 NC_003454:FN2058|3end_Fusobacterium_outer_membrane_protein_family_565711..565861_NEGATIVE 162 69 28 42 3 NC_003454:FN0880|3end_ABC_transporter_ATP-binding_protein_1540962..1541112_NEGATIVE 155 92 66 131 104 NC_003454:FN1056|3end_hypothetical_protein_1704372..1704522_POSITIVE 155 69 21 49 5 NC_003454:FN0959|3end_Precorrin-2_C20-methyltransferase_1614312..1614462_NEGATIVE 154 52 18 140 112 NC_003454:FN0816|3end_dehydrogenase_with_MaoC-like_domain_1476455..1476605_POSITIVE 153 78 31 132 80 NC_003454:FN1576|3end_ATPase_and_helicase_subunits_involved_in_DNA_replication_86505..86655_NEGATIVE 152 138 91 119 60 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE 151 50 4 84 38 NC_003454:FN1229|3end_hypothetical_protein_1886260..1886410_NEGATIVE 150 157 114 143 101 NC_003454:FN1875|3end_Peptidyl-prolyl_cis-trans_isomerase_363906..364056_NEGATIVE 147 87 60 46 16 NC_003454:FN0154|3end_Ribonuclease_G_783196..783346_POSITIVE 146 60 17 82 34 NC_003454:FN1721|3end_hypothetical_protein_219661..219811_NEGATIVE 144 64 21 104 65 NC_003454:FN0643|3end_hypothetical_protein_1299434..1299584_NEGATIVE 144 50 14 95 62 NC_003454:FN2034|3end_Protein_yicC_537917..538067_NEGATIVE 143 57 16 143 104 NC_003454:FN0290|3end_Hemolysin_916814..916964_NEGATIVE 142 59 18 122 82 NC_003454:FN1413|3end_translation_initiation_factor_IF-2B_subunit_alpha_2073221..2073371_NEGATIVE 142 64 21 119 75 NC_003454:FN0268|3end_DNA_repair_protein_recN_896086..896236_POSITIVE 141 76 39 60 23 NC_003454:FN1152|3end_aspartate_aminotransferase_1807887..1808037_POSITIVE