Origin IGS: taaagttatttttctgagatactaaactttatgttcgtaaagtcaaacataagagccacgtttccgtgcaatttacaaagcgtttggcaagttgtaacatcgctaacagactattcgtggagaagtgatgtcgaagagatagaggtcatatcagacacgcaatttgtagagatgacgaagagtggatataagacaactttcacggtagcaagacaagaaccttgttgtcgatgggagtttgacatggagaatgacaatatgaaaggacattgggtcggtgttttctgtggcaatgaaaagaatgctacgattgactttacagaacacattgagcctaagaactggtttatgattccgtttatgaagatttatttaaaatatcggcaagccaagtatgtcagagatttaagaaacgtgttaaaaagagtacagccatagatttttggaaaccatt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatggtttccaaaaatctatggctgtactctttttaacacgtttcttaaatctctgacatacttggcttgccgatattttaaataaatcttcataaacggaatcataaaccagttcttaggctcaatgtgttctgtaaagtcaatcgtagcattcttttcattgccacagaaaacaccgacccaatgtcctttcatattgtcattctccatgtcaaactcccatcgacaacaaggttcttgtcttgctaccgtgaaagttgtcttatatccactcttcgtcatctctacaaattgcgtgtctgatatgacctctatctcttcgacatcacttctccacgaatagtctgttagcgatgttacaacttgccaaacgctttgtaaattgcacggaaacgtggctcttatgtttgactttacgaacataaagtttagtatctcagaaaaataacttta Mask Tandem Repeat Region ================================================ taaagttatttttctgagatactaaactttatgttcgtaaagtcaaacataagagccacgtttccgtgcaatttacaaagcgtttggcaagttgtaacatcgctaacagactattcgtggagaagtgatgtcgaagagatagaggtcatatcagacacgcaatttgtagagatgacgaagagtggatataagacaactttcacggtagcaagacaagaaccttgttgtcgatgggagtttgacatggagaatgacaatatgaaaggacattgggtcggtgttttctgtggcaatgaaaagaatgctacgattgactttacagaacacattgagcctaagaactggtttatgattccgtttatgaagatttatttaaaatatcggcaagccaagtatgtcagagatttaagaaacgtgttaaaaagagtacagccatagatttttggaaaccatt Find is-nt database================================================ Query_seq: TF0919:TF0920|TF0919:TF0920:conserved hypothetical protein:conserved hypothetical protein:->->:957834..958287 454 taaagttatttttctgagatactaaactttatgttcgtaaagtcaaacataagagccacgtttccgtgcaatttacaaagcgtttggcaagttgtaacatcgctaacagactattcgtggagaagtgatgtcgaagagatagaggtcatatcagacacgcaatttgtagagatgacgaagagtggatataagacaactttcacggtagcaagacaagaaccttgttgtcgatgggagtttgacatggagaatgacaatatgaaaggacattgggtcggtgttttctgtggcaatgaaaagaatgctacgattgactttacagaacacattgagcctaagaactggtttatgattccgtttatgaagatttatttaaaatatcggcaagccaagtatgtcagagatttaagaaacgtgttaaaaagagtacagccatagatttttggaaaccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0919:TF0920|TF0919:TF0920:conserved hypothetical protein:conserved hypothetical protein:->->:957834..958287 454 taaagttatttttctgagatactaaactttatgttcgtaaagtcaaacataagagccacgtttccgtgcaatttacaaagcgtttggcaagttgtaacatcgctaacagactattcgtggagaagtgatgtcgaagagatagaggtcatatcagacacgcaatttgtagagatgacgaagagtggatataagacaactttcacggtagcaagacaagaaccttgttgtcgatgggagtttgacatggagaatgacaatatgaaaggacattgggtcggtgttttctgtggcaatgaaaagaatgctacgattgactttacagaacacattgagcctaagaactggtttatgattccgtttatgaagatttatttaaaatatcggcaagccaagtatgtcagagatttaagaaacgtgttaaaaagagtacagccatagatttttggaaaccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0919:TF0920|TF0919:TF0920:conserved hypothetical protein:conserved hypothetical protein:->->:957834..958287 454 taaagttatttttctgagatactaaactttatgttcgtaaagtcaaacataagagccacgtttccgtgcaatttacaaagcgtttggcaagttgtaacatcgctaacagactattcgtggagaagtgatgtcgaagagatagaggtcatatcagacacgcaatttgtagagatgacgaagagtggatataagacaactttcacggtagcaagacaagaaccttgttgtcgatgggagtttgacatggagaatgacaatatgaaaggacattgggtcggtgttttctgtggcaatgaaaagaatgctacgattgactttacagaacacattgagcctaagaactggtttatgattccgtttatgaagatttatttaaaatatcggcaagccaagtatgtcagagatttaagaaacgtgttaaaaagagtacagccatagatttttggaaaccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 3 Min: 43 Max: 423 Len: 381 Subject: UniRef90_Q8G637 Cluster: Hypothetical protein; n=1; Bifidobacterium longum|Rep: Hypothetical protein - Bifidobacterium longum HSP 1 e-value: 1.0E-34 bit: 147.0 Len: 381 Query Start:43 Query End:423 Subject Strand: null Subject Start: 4 Subject End: 131 .......................................... S N I R A T F P C N L Q S V W Q V V T S L T D Y - S W R S D V E E I E V I S D T Q F V E M T K S G Y K T T F T V A R Q E P C C R W E F D M E N D N M K G H W V G V F C G N E K N A T I D F T E H I E P K N W F M I P F M K I Y L K Y R Q A K Y V R D L R N V L K ............................... .......................................... S N I N T I I S N D F Q K V W N I V L A V D K Y N S W R S D L S K T E I I N D K Q F I E Y T K N G Y A T T F T V T V V E P Y K R W E F D M E N S N M K G H W I G V F I D K G N E T Q I D F T E N V I P K K W F M K P F V K T Y L K K Q Q K Q F V L D L K K A L E ............................... Subject: UniRef90_Q48SV9 Cluster: Hypothetical protein; n=1; Streptococcus pyogenes serotype M28|Rep: Hypothetical protein - Streptococcus pyogenes serotype M28 HSP 1 e-value: 2.0E-26 bit: 120.0 Len: 378 Query Start:43 Query End:420 Subject Strand: null Subject Start: 4 Subject End: 129 .......................................... S N I R A T F P C N L Q S V W Q V V T S L T D Y S W R S D V E E I E V I S D T Q F V E M T K S G Y K T T F T V A R Q E P C C R W E F D M E N D N M K G H W V G V F C G N E K N A T I D F T E H I E P K N W F M I P F M K I Y L K Y R Q A K Y V R D L R N V L .................................. .......................................... A K I K V T L N C P I E K V W D K V T D L R D F S W R S D I K D I K I I D D K N F V E I T K D G I E T N F K V I K C T K H Q C W S F E I E N A N I K G T W I G K F Y S N G D K T T L D F T E N I I S K K F I F K P F V G L Y L R N Q Q K L Y F K D L K E V L .................................. Subject: UniRef90_Q2WVH9 Cluster: Hypothetical protein; n=1; Clostridium beijerincki NCIMB 8052|Rep: Hypothetical protein - Clostridium beijerincki NCIMB 8052 HSP 1 e-value: 2.0E-15 bit: 84.0 Len: 378 Query Start:43 Query End:420 Subject Strand: null Subject Start: 7 Subject End: 136 .......................................... S N I R A T F P C N L Q S V W Q V V T S L T D Y S W R S D V E E I E V I S D - T Q F V E M T K S G Y K T T F T V A R Q E P C C R W E F D M E N D N M K G H W V G V F C G N E K N A T - I D F T E H I E P K N W F - - M I P F M K I Y L K Y R Q A K Y V R D L R N V L .................................. .......................................... A E I T A E F N S N I K S V W N I V T N N N D Y S W R S D I K K I E I Y N N G K E F I E Y T H N G N A T K F I I S K K D E Y S E Y A F N M E N K M F T G F W K G S F S E K E N G G T K I V F K E N V F I K N P F I R I L S Y F F M D L G K I Q N T Y I S D L R K K L .................................. taaagttatttttctgagatactaaactttatgttcgtaaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagagtacagccatagatttttggaaaccatt Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 19 End: 435 .................. M L N F M F V K S N I R A T F P C N L Q S V W Q V V T S L T D Y S W R S D V E E I E V I S D T Q F V E M T K S G Y K T T ................... Protein_Len: 37 Strand: + Start: 342 End: 452 ..................................................................................................................................................................................................................................................................................................................................................... M V Y D S V Y E D L F K I S A S Q V C Q R F K K R V K K S T A I D F W K P .. Protein_Len: 60 Strand: - Start: 154 End: 372 ......................................................................................................................................................... C S E R Y C S L F R T T S P L K V H L I V I H F S M P D T N E T A I F L I S R N V K C F V N L R L V P K H N R K H L N M .................................................................................. Protein_Len: 60 Strand: - Start: 114 End: 368 ................................................................................................................. L V V K V T A L C S G Q Q R H S N S M S F S L I F P C Q T P T K Q P L S F F A V I S K V S C M S G L F Q N I I G N I F M ...................................................................................... taaagttatttttctgagatactaaactttatgttcgtaaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagagtacagccatagatttttggaaaccatt 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: 82 Start: 71 End: 100 ......................................................................ATTTACAAAGCGTTTGGCAAGTTGTAACAT.................................................................................................................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaagttatttttctgagatactaaactttatgttcgtaaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagagtacagccatagatttttggaaaccatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0919:TF0920|TF0919:TF0920:conserved hypothetical protein:conserved hypothetical protein:->->:957834..958287 454 taaagttatttttctgagatactaaactttatgttcgtaaagnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagagtacagccatagatttttggaaaccatt Intra-Species Hit: Count: 1 Min: 1 Max: 454 Len: 454 Subject: tfor_TF0919_TF0920|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[957834,958287]|454 HSP 1 e-value: 2.0E-14 bit: 81.8 Len: 41 Query Start:1 Query End:41 Subject Strand: POSITIVE Subject Start: 1 Subject End: 41 taaagttatttttctgagatactaaactttatgttcgtaaa............................................................................................................................................................................................................................................................................................................................................................................................................................. taaagttatttttctgagatactaaactttatgttcgtaaa............................................................................................................................................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 2.0E-8 bit: 61.9 Len: 31 Query Start:424 Query End:454 Subject Strand: POSITIVE Subject Start: 424 Subject End: 454 .......................................................................................................................................................................................................................................................................................................................................................................................................................................agagtacagccatagatttttggaaaccatt .......................................................................................................................................................................................................................................................................................................................................................................................................................................agagtacagccatagatttttggaaaccatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUUAUUUUUCUGAGAUACUAAACUUUAUGUUCGUAAAGUCAAACAUAAGAGCCACGUUUCCGUGCAAUUUACAAAGCGUUUGGCAAGUUGUAACAUCGCUAACAGACUAUUCGUGGAGAAGUGAUGUCGAAGAGAUAGAGGUCAUAUCAGACACGCAAUUUGUAGAGAUGACGAAGAGUGGAUAUAAGACAACUUUCACGGUAGCAAGACAAGAACCUUGUUGUCGAUGGGAGUUUGACAUGGAGAAUGACAAUAUGAAAGGACAUUGGGUCGGUGUUUUCUGUGGCAAUGAAAAGAAUGCUACGAUUGACUUUACAGAACACAUUGAGCCUAAGAACUGGUUUAUGAUUCCGUUUAUGAAGAUUUAUUUAAAAUAUCGGCAAGCCAAGUAUGUCAGAGAUUUAAGAAACGUGUUAAAAAGAGUACAGCCAUAGAUUUUUGGAAACCAUU .....(((..(((((((.(((((...((((((((((((((((((((.....((((.(((.(((((((((.((((((....((((..(((((((((.((((((((..((((....)).))....)))))))).............(((......)))..)))))))))......))))....)))))).......((((..((((..((((((........))))))..)).))..)))).).))))))))..(((...(((......)))...))).)))..))))((((((.(....)...))))))..)))))))))).)))).(((.(((((........)))))))).........))))))................((....)).))))).)))))))..))).......................(((........)))........ (-113.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGGUUUCCAAAAAUCUAUGGCUGUACUCUUUUUAACACGUUUCUUAAAUCUCUGACAUACUUGGCUUGCCGAUAUUUUAAAUAAAUCUUCAUAAACGGAAUCAUAAACCAGUUCUUAGGCUCAAUGUGUUCUGUAAAGUCAAUCGUAGCAUUCUUUUCAUUGCCACAGAAAACACCGACCCAAUGUCCUUUCAUAUUGUCAUUCUCCAUGUCAAACUCCCAUCGACAACAAGGUUCUUGUCUUGCUACCGUGAAAGUUGUCUUAUAUCCACUCUUCGUCAUCUCUACAAAUUGCGUGUCUGAUAUGACCUCUAUCUCUUCGACAUCACUUCUCCACGAAUAGUCUGUUAGCGAUGUUACAACUUGCCAAACGCUUUGUAAAUUGCACGGAAACGUGGCUCUUAUGUUUGACUUUACGAACAUAAAGUUUAGUAUCUCAGAAAAAUAACUUUA ...(((..(((........)))....))).......................(((((.(((((..(((((((...((((.....))))..........(((((.........)))))..)))....(((((((.((((((((((.(((((.........((((((.(((((.......(((...(((......)))...))).......(((((...........((((((..(((............)))......))))))...............(((((.((.(((.......)))..)).)))))............))))).................)))))..))))))((((((...((.....)).))))))....((((....))))....))))).)))))))))))))))))))))..))))).)))))............ (-85.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 238 191 64 15 tfor:TF1178|5end_sigma-54_dependent_DNA-binding_response_regulator_1264693..1264923_POSITIVE 372 99 56 66 26 tfor:TF0603|5end_glycosyltransferase_633811..634041_POSITIVE 344 189 142 61 17 tfor:TF1410|5end_cation_efflux_system_protein,_possible_drug_efflux_protein_1487003..1487233_POSITIVE 331 87 41 208 160 tfor:TF2293|5end_hypothetical_protein_2447833..2448063_POSITIVE 329 300 256 155 106 tfor:TF2509|5end_ATP-dependent_clp_protease,_proteolytic_subunit_2687562..2687792_POSITIVE 325 149 101 224 174 tfor:TF2502|5end_conserved_hypothetical_protein_2678103..2678333_POSITIVE 321 230 181 146 101 tfor:TF0005|5end_possible_beta-lactamase_600..830_POSITIVE 317 250 202 229 175 tfor:TF2207|5end_exo-alpha-sialidase_(neuraminidase)_2380907..2381137_POSITIVE 316 309 266 44 3 tfor:TF0780|5end_alpha-L-arabinofuranosidase,_precursor_A_831944..832174_POSITIVE 315 145 101 225 173 tfor:TF2134|5end_conserved_hypothetical_protein_2308689..2308919_POSITIVE 308 156 115 214 164 tfor:TF1176|5end_outer_membrane_protein_1259555..1259785_POSITIVE 305 250 203 198 161 tfor:TF2913|5end_conserved_hypothetical_protein_3107910..3108140_POSITIVE 305 95 55 194 138 tfor:TF0241|5end_UDP-N-acetyl_glucosamine_-2-epimerase_271321..271551_POSITIVE 304 318 276 70 27 tfor:TF1023|5end_ABC_transporter,_permease_component_1079197..1079427_POSITIVE 297 310 267 51 1 tfor:TF2752|5end_endonuclease_III_2936781..2937011_POSITIVE 297 110 65 73 34 tfor:TF1328|5end_possible_cytidylyltransferase_1407434..1407664_POSITIVE 296 307 271 165 132 tfor:TF1468|5end_beta-galactosidase_1557785..1558015_POSITIVE 294 209 163 159 109 tfor:TF2804|5end_conserved_hypothetical_protein_2993494..2993724_POSITIVE 294 139 99 226 184 tfor:TF0242|5end_conserved_hypothetical_protein_272439..272669_POSITIVE 293 250 203 63 10 tfor:TF1251|5end_riboflavin_synthase,_alpha_subunit_1333744..1333974_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 375 238 191 64 15 tfor:TF1177|3end_conserved_hypothetical_protein;_possible_ribosomal_protein_S1_1264773..1264923_POSITIVE 349 278 231 134 76 tfor:TF3030|3end_16S_rRNA_processing_protein_3254296..3254446_POSITIVE 344 189 142 57 13 tfor:TF1409|3end_outer_membrane_protein_TolC_1487079..1487229_POSITIVE 331 87 41 138 90 tfor:TF2292|3end_hypothetical_protein_2447843..2447993_POSITIVE 329 300 256 134 85 tfor:TF2508|3end_ATP-dependent_Clp_protease,_ATP-binding_subunit_clpX_2687621..2687771_POSITIVE 321 230 181 113 68 tfor:TF0002|3end_hypothetical_protein_647..797_POSITIVE 307 100 54 56 17 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 304 318 276 52 9 tfor:TF1022|3end_chromosomal_replication_initiator_ATPase,_DnaA_1079259..1079409_POSITIVE 302 278 232 128 82 tfor:TF1601|3end_conserved_hypothetical_protein_1715539..1715689_POSITIVE 299 310 270 79 28 tfor:TF3046|3end_hypothetical_protein_3275192..3275342_POSITIVE 296 307 271 137 104 tfor:TF1467|3end_conserved_hypothetical_protein_1557837..1557987_POSITIVE 294 209 163 52 2 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE 292 150 102 101 47 tfor:TF1049|3end_cobyrinic_acid_a,c-diamide_synthase_1111539..1111689_POSITIVE 291 186 144 134 96 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 289 242 201 66 32 tfor:TF1421|3end_UDP-N-acetylmuramate--alanine_ligase_1504921..1505071_POSITIVE 285 290 244 133 85 tfor:TF0704|3end_TPR-repeat-containing_protein_749332..749482_POSITIVE 284 88 55 107 69 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 283 97 55 118 82 tfor:TF2152|3end_uronate_isomerase_2328061..2328211_POSITIVE 282 139 92 148 103 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 282 250 203 145 95 tfor:TF1867|3end_transposase_2023612..2023762_POSITIVE