Origin IGS: tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggaaatatgttaaagttttacatagatgtaataaattatcttgcaatctttgcatttcttttaggaattattacagcactattgataaaatataaaaatttatatttgaatatagttgttggattaatttcattagttgggctagcttgttcaattacaatgactgtatttaaacagctgtatccacagaaaatggtaaagatatcactgcaatataataggtgggcattggcaattggaatgggatttatgctgatagctttattatttcaatttttaaaaactttaaaagagaagggtagaagtaaactttgtattctatcaattataagtattagcttttctatgatagctatatggtttttagcttttacaataattccacaggtatatgca Mask Tandem Repeat Region ================================================ tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Find is-nt database================================================ Query_seq: FN1355:FN1356|FN1355:FN1356:Integral membrane protein:hypothetical protein:<-->:2007666..2008061 396 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1355:FN1356|FN1355:FN1356:Integral membrane protein:hypothetical protein:<-->:2007666..2008061 396 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1355:FN1356|FN1355:FN1356:Integral membrane protein:hypothetical protein:<-->:2007666..2008061 396 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 17 End: 124 ................ M I V K A K N H I A I I E K L I L I I D R I Q S L L L P F S F K V F K N ................................................................................................................................................................................................................................................................................ Protein_Len: 60 Strand: + Start: 140 End: 358 ........................................................................................................................................... M S I N P I P I A N A H L L Y C S D I F T I F C G Y S C L N T V I V I E Q A S P T N E I N P T T I F K Y K F L Y F I N S ...................................... Protein_Len: 60 Strand: - Start: 1 End: 390 P Y L Q K F V T M T I S C A L G V L S I L G V V I N L Y L N K Y K I L L A T I I G L L F A F I A L Y N I V D I Y F K L M ...... tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc 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================================================ tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 45 HP_score: -2.0 Tail_Score: -3.5525 Start: 229 End: 241 Full_Region: gctagcttgttcaat taca atgac tgta tttaaacagctgtat ....................................................................................................................................................................................................................................tacaatgactgta........................................................................................................................................................... Find igs database================================================ Query_seq: FN1355:FN1356|FN1355:FN1356:Integral membrane protein:hypothetical protein:<-->:2007666..2008061 396 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Intra-Species Hit: Count: 1 Min: 1 Max: 396 Len: 396 Subject: NC_003454_FN1355_FN1356|Integral membrane protein:hypothetical protein|NEGATIVE:POSITIVE|[2007666,2008061]|396 HSP 1 e-value: 0.0 bit: 785.0 Len: 396 Query Start:1 Query End:396 Subject Strand: POSITIVE Subject Start: 1 Subject End: 396 tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc tgcatatacctgtggaattattgtaaaagctaaaaaccatatagctatcatagaaaagctaatacttataattgatagaatacaaagtttacttctacccttctcttttaaagtttttaaaaattgaaataataaagctatcagcataaatcccattccaattgccaatgcccacctattatattgcagtgatatctttaccattttctgtggatacagctgtttaaatacagtcattgtaattgaacaagctagcccaactaatgaaattaatccaacaactatattcaaatataaatttttatattttatcaatagtgctgtaataattcctaaaagaaatgcaaagattgcaagataatttattacatctatgtaaaactttaacatatttcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCAUAUACCUGUGGAAUUAUUGUAAAAGCUAAAAACCAUAUAGCUAUCAUAGAAAAGCUAAUACUUAUAAUUGAUAGAAUACAAAGUUUACUUCUACCCUUCUCUUUUAAAGUUUUUAAAAAUUGAAAUAAUAAAGCUAUCAGCAUAAAUCCCAUUCCAAUUGCCAAUGCCCACCUAUUAUAUUGCAGUGAUAUCUUUACCAUUUUCUGUGGAUACAGCUGUUUAAAUACAGUCAUUGUAAUUGAACAAGCUAGCCCAACUAAUGAAAUUAAUCCAACAACUAUAUUCAAAUAUAAAUUUUUAUAUUUUAUCAAUAGUGCUGUAAUAAUUCCUAAAAGAAAUGCAAAGAUUGCAAGAUAAUUUAUUACAUCUAUGUAAAACUUUAACAUAUUUCC (((((........((((((((((....(((...........(((((..........))))).........((((((((((((.((((((((..............((((((.....)))))).(((((....(((((.((((.(((................)))...(((..............)))..)))).))))).((((...((.((....((((((((((.(((((...))))).)))))).))))..))))...))))....................)))))...))))))))..))))))))))))...))).))))))))))........)))))....(((((((((..........)))).)))))................. (-62.32) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAAUAUGUUAAAGUUUUACAUAGAUGUAAUAAAUUAUCUUGCAAUCUUUGCAUUUCUUUUAGGAAUUAUUACAGCACUAUUGAUAAAAUAUAAAAAUUUAUAUUUGAAUAUAGUUGUUGGAUUAAUUUCAUUAGUUGGGCUAGCUUGUUCAAUUACAAUGACUGUAUUUAAACAGCUGUAUCCACAGAAAAUGGUAAAGAUAUCACUGCAAUAUAAUAGGUGGGCAUUGGCAAUUGGAAUGGGAUUUAUGCUGAUAGCUUUAUUAUUUCAAUUUUUAAAAACUUUAAAAGAGAAGGGUAGAAGUAAACUUUGUAUUCUAUCAAUUAUAAGUAUUAGCUUUUCUAUGAUAGCUAUAUGGUUUUUAGCUUUUACAAUAAUUCCACAGGUAUAUGCA ((((.(((.((((((((((.....(((((.((..(((((.(((((((((((((.(((((....(((.....((((((..((((.....))))............((((((((((((..(((((......))..(((((((((......))))))))))))..))))))))))))..)))))))))..)))))...)))))))).....))))).)))))..))..)))))...(((((((((((.......((.....))....)))))))))))....)))))))))).........(((((((((((((.((((..((((((.....((((....)))).....)))))).)))).)))))...)))))))).))).))))............. (-92.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 778 50 1 141 92 NC_003454:FN1355|5end_Integral_membrane_protein_2007575..2007805_NEGATIVE 299 180 134 59 18 NC_003454:FN1192|5end_hypothetical_protein_1854679..1854909_POSITIVE 296 226 191 117 76 NC_003454:FN1915|5end_Anti-sigma_B_factor_412320..412550_NEGATIVE 288 347 315 32 3 NC_003454:FN0670|5end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1325702..1325932_POSITIVE 268 220 171 73 17 NC_003454:FN0006|5end_tRNA_modification_GTPase_644505..644735_POSITIVE 258 218 171 171 117 NC_003454:FN2047|5end_Fusobacterium_outer_membrane_protein_family_556383..556613_NEGATIVE 251 205 162 215 163 NC_003454:FN0163|5end_5-methyltetrahydrofolate--homocysteine_methyltransferase_791318..791548_POSITIVE 250 200 155 53 6 NC_003454:FN0766|5end_Large-conductance_mechanosensitive_channel_1421910..1422140_POSITIVE 249 189 156 230 195 NC_003454:FN0036|5end_Hypothetical_membrane-spanning_Protein_677609..677839_NEGATIVE 241 180 134 47 7 NC_003454:FN0712|5end_Chromate_transport_protein_1370776..1371006_POSITIVE 240 224 184 53 4 NC_003454:FN0206|5end_Activator_of_(R)-2-hydroxyglutaryl-CoA_dehydratase_832758..832988_POSITIVE 235 180 135 34 3 NC_003454:FN1470|5end_hypothetical_protein_2151868..2152098_POSITIVE 230 179 153 101 70 NC_003454:FN1422|5end_NA+/H+_antiporter_NHAC_2088426..2088656_NEGATIVE 230 188 151 86 59 NC_003454:FN1237|5end_Choline_kinase_1895057..1895287_NEGATIVE 229 61 21 57 28 NC_003454:FN1478|5end_hypothetical_protein_2160663..2160893_NEGATIVE 229 195 151 42 5 NC_003454:FN2098|5end_MRP-family_nucleotide-binding_protein_608146..608376_NEGATIVE 227 180 131 53 4 NC_003454:FN1451|5end_cell_division_protein_FtsZ_2132710..2132940_NEGATIVE 226 269 229 216 158 NC_003454:FN0104|5end_Acetyltransferase_739896..740126_NEGATIVE 224 279 232 88 41 NC_003454:FN1450|5end_Integral_membrane_protein_2131410..2131640_NEGATIVE 222 119 72 100 43 NC_003454:FN0263|5end_Peptidyl-prolyl_cis-trans_isomerase_890064..890294_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 193 151 36 5 NC_003454:FN1191|3end_hypothetical_protein_1854729..1854879_POSITIVE 268 220 171 67 11 NC_003454:FN0005|3end_Jag_protein_644579..644729_POSITIVE 241 180 134 54 14 NC_003454:FN0711|3end_Phosphopantothenate--cysteine_ligase_1370863..1371013_POSITIVE 240 226 200 31 1 NC_003454:FN1916|3end_hypothetical_protein_412406..412556_NEGATIVE 231 199 151 59 6 NC_003454:FN1998|3end_HIPA_protein_500391..500541_POSITIVE 220 330 289 114 64 NC_003454:FN0975|3end_CbiB_protein_1627149..1627299_NEGATIVE 219 180 131 148 94 NC_003454:FN1164|3end_Glucokinase_1822781..1822931_POSITIVE 218 190 143 76 27 NC_003454:FN0008|3end_quinolinate_synthetase_648986..649136_POSITIVE 218 208 163 75 23 NC_003454:FN1914|3end_Anti-sigma_F_factor_antagonist_411643..411793_NEGATIVE 213 174 136 151 115 NC_003454:FN1253|3end_hypothetical_protein_1910229..1910379_NEGATIVE 212 166 132 84 46 NC_003454:FN1266|3end_UTP--glucose-1-phosphate_uridylyltransferase_1922158..1922308_NEGATIVE 206 164 133 55 12 NC_003454:FN0081|3end_Ethanolamine_utilization_protein_eutL_720768..720918_POSITIVE 204 204 162 117 75 NC_003454:FN0029|3end_Flavodoxin_666596..666746_NEGATIVE 203 120 86 132 93 NC_003454:FN0715|3end_hypothetical_protein_1374056..1374206_POSITIVE 201 355 314 60 21 NC_003454:FN1183|3end_Hypothetical_cytosolic_protein_1845428..1845578_NEGATIVE 197 180 137 70 23 NC_003454:FN1020|3end_3-hydroxybutyryl-CoA_dehydratase_1673800..1673950_NEGATIVE 197 199 153 102 45 NC_003454:FN0215|3end_MGTC/SAPB_Family_membrane_protein_839240..839390_NEGATIVE 197 199 153 150 102 NC_003454:FN0087|3end_Ethanolamine_utilization_protein_eutN_724954..725104_POSITIVE 196 209 172 133 87 NC_003454:FN1311|3end_Biopolymer_transport_exbD_protein_1965948..1966098_NEGATIVE 196 239 191 100 49 NC_003454:FN1917|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_412845..412995_NEGATIVE