Origin IGS: taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa .........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 tttttctgtgtttttatcattataacaaaaggattttagcccacctgtcattttctatatcggaagcaaacagggataaaagacttccgggaaaacctgtaaacagcgaaagattctattatcaagtgattcgcaattctttcaagcaagtgtactttttcatgttgtaactgcatatatattaccataaaacatccggtcgcgaatttagaatatattttccacacatgcaaattccccaagtgaaaaaacgcctcatagtaacttta Mask Tandem Repeat Region ================================================ taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Find is-nt database================================================ Query_seq: TF1107:TF1108|TF1107:TF1108:ABC transporter ATP-binding/permease component, bacteriocin/lantibiotic exporter:conserved hypothetical protein; possible lipoprotein:->->:1177686..1177954 269 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1107:TF1108|TF1107:TF1108:ABC transporter ATP-binding/permease component, bacteriocin/lantibiotic exporter:conserved hypothetical protein; possible lipoprotein:->->:1177686..1177954 269 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1107:TF1108|TF1107:TF1108:ABC transporter ATP-binding/permease component, bacteriocin/lantibiotic exporter:conserved hypothetical protein; possible lipoprotein:->->:1177686..1177954 269 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 28 End: 219 ........................... M G N L H V W K I Y S K F A T G C F M V I Y M Q L Q H E K V H L L E R I A N H L I I E S F A V Y R F S R K S F I P V C F .................................................. Protein_Len: 54 Strand: - Start: 103 End: 264 ...................................................................................................... L M F F Y V Q K F S N R I V Q Y Y F R E S N V P K G P L R K D R N A E S I S F S L H A L I R K N Y H Y F C M ..... Protein_Len: 36 Strand: - Start: 27 End: 134 .......................... K P F K C T H F I Y E L N A V P H K I T I Y I C N C C S F T C K S S L M ....................................................................................................................................... Protein_Len: 33 Strand: - Start: 1 End: 99 L T V I L R K K V Q P I Q M H P F Y I R F E R G S T K H Y Y I H M .......................................................................................................................................................................... taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa 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================================================ taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1107:TF1108|TF1107:TF1108:ABC transporter ATP-binding/permease component, bacteriocin/lantibiotic exporter:conserved hypothetical protein; possible lipoprotein:->->:1177686..1177954 269 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 269 Len: 269 Subject: tfor_TF1107_TF1108|ABC transporter ATP-binding/permease component, bacteriocin/lantibiotic exporter:conserved hypothetical protein; possible lipoprotein|POSITIVE:POSITIVE|[1177686,1177954]|269 HSP 1 e-value: 1.0E-150 bit: 533.0 Len: 269 Query Start:1 Query End:269 Subject Strand: POSITIVE Subject Start: 1 Subject End: 269 taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa taaagttactatgaggcgttttttcacttggggaatttgcatgtgtggaaaatatattctaaattcgcgaccggatgttttatggtaatatatatgcagttacaacatgaaaaagtacacttgcttgaaagaattgcgaatcacttgataatagaatctttcgctgtttacaggttttcccggaagtcttttatccctgtttgcttccgatatagaaaatgacaggtgggctaaaatccttttgttataatgataaaaacacagaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUUACUAUGAGGCGUUUUUUCACUUGGGGAAUUUGCAUGUGUGGAAAAUAUAUUCUAAAUUCGCGACCGGAUGUUUUAUGGUAAUAUAUAUGCAGUUACAACAUGAAAAAGUACACUUGCUUGAAAGAAUUGCGAAUCACUUGAUAAUAGAAUCUUUCGCUGUUUACAGGUUUUCCCGGAAGUCUUUUAUCCCUGUUUGCUUCCGAUAUAGAAAAUGACAGGUGGGCUAAAAUCCUUUUGUUAUAAUGAUAAAAACACAGAAAAA ....(((((((((((((((((..((.....(.(((((((.((((((.....))))))..))))))).)))..)))))))))))))))))......((((((....((.(...(((....))).).))....))))))..((((.............(((.(((..((..(((((..(...(....)......)..)))))..))...)))...)))..((((((((.(((......))).))))))))..))))............... (-53.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUGUGUUUUUAUCAUUAUAACAAAAGGAUUUUAGCCCACCUGUCAUUUUCUAUAUCGGAAGCAAACAGGGAUAAAAGACUUCCGGGAAAACCUGUAAACAGCGAAAGAUUCUAUUAUCAAGUGAUUCGCAAUUCUUUCAAGCAAGUGUACUUUUUCAUGUUGUAACUGCAUAUAUAUUACCAUAAAACAUCCGGUCGCGAAUUUAGAAUAUAUUUUCCACACAUGCAAAUUCCCCAAGUGAAAAAACGCCUCAUAGUAACUUUA .......((((((((.(((((.......(((..(((((.....(((((...(((((.....)))))...)))))..)))))..)))..(((((...(((....))).((((((.......(((....))).......))))))..(((.((((...........(((..((((.......................))))..))).....(((......))).)))).)))...)))))..)))))))))))))............... (-49.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 367 209 161 107 58 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 332 209 161 197 148 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 326 78 31 65 20 tfor:TF1057|5end_possible_outer_membrane_receptor,_TonB-linked_1122428..1122658_POSITIVE 325 214 173 222 185 tfor:TF2565|5end_50S_ribosomal_protein_L24_2739986..2740216_POSITIVE 322 209 166 70 17 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 321 209 166 78 26 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 317 209 161 197 153 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 310 228 182 188 133 tfor:TF0782|5end_ThiJ/PfpI_family_protein_835976..836206_POSITIVE 306 209 161 199 156 tfor:TF0543|5end_glycine_cleavage_system_p-protein_572251..572481_POSITIVE 304 210 163 206 163 tfor:TF2642|5end_acetylornithine_deacetylase_2810677..2810907_POSITIVE 303 210 161 158 111 tfor:TF2837|5end_conserved_hypothetical_protein_3027939..3028169_POSITIVE 300 220 178 63 20 tfor:TF1914|5end_conserved_hypothetical_protein_2066599..2066829_POSITIVE 296 209 163 160 121 tfor:TF1001|5end_penicillin-binding_protein_1A_1054097..1054327_POSITIVE 293 80 35 78 36 tfor:TF3035|5end_aldose_1-epimerase_3260538..3260768_POSITIVE 292 207 161 155 95 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 292 188 145 184 142 tfor:TF1952|5end_immunoreactive_84kD_antigen_PG93_2101443..2101673_POSITIVE 292 209 162 190 123 tfor:TF0944|5end_TonB-dependent_receptor_986340..986570_POSITIVE 290 239 202 39 1 tfor:TF2054|5end_UDP-N-acetylglucosamine_2-epimerase_2218301..2218531_POSITIVE 285 198 158 164 115 tfor:TF2512|5end_possible_abortive_infection_protein_2690247..2690477_POSITIVE 285 45 5 224 178 tfor:TF0809|5end_cation_efflux_protein_865358..865588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 367 209 161 107 58 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 332 209 161 146 97 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 322 209 166 139 86 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 321 86 41 50 10 tfor:TF1056|3end_conserved_hypothetical_protein_1122485..1122635_POSITIVE 310 228 182 136 81 tfor:TF0781|3end_serine_protease_inhibitor_836004..836154_POSITIVE 292 188 145 108 66 tfor:TF1951|3end_xanthosine_triphosphate_pyrophosphatase,_Ham1-like_protein_2101447..2101597_POSITIVE 290 239 202 39 1 tfor:TF2053|3end_glycosyltransferase_2218381..2218531_POSITIVE 285 198 158 69 20 tfor:TF2511|3end_RNA_binding_protein_2690232..2690382_POSITIVE 282 199 162 110 61 tfor:TF0269|3end_possible_transposase_element_297352..297502_POSITIVE 281 210 161 105 59 tfor:TF2347|3end_outer_membrane_protein,_TonB_dependent_receptor_2511092..2511242_POSITIVE 281 238 193 52 16 tfor:TF1510|3end_outer_membrane_protein_1621118..1621268_POSITIVE 278 209 164 122 74 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 277 215 171 124 84 tfor:TF0331|3end_hypothetical_protein_359369..359519_POSITIVE 276 199 156 54 17 tfor:TF2879|3end_tRNA_(guanine-N-1)-methyltransferase_3069008..3069158_POSITIVE 276 230 194 81 36 tfor:TF2305|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2462693..2462843_POSITIVE 273 211 171 115 81 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 273 74 35 66 21 tfor:TF0982|3end_conserved_hypothetical_protein_1039474..1039624_POSITIVE 269 174 131 144 105 tfor:TF2386|3end_beta-galactosidase_2554449..2554599_POSITIVE 269 210 161 122 75 tfor:TF1273|3end_hypothetical_protein_1357462..1357612_POSITIVE 268 210 163 54 14 tfor:TF2991|3end_conserved_hypothetical_protein_3209107..3209257_POSITIVE