Origin IGS: gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgaactttgattgaaaaaacatatgaaacaccaagtggaataattcattattggacaaatgatgctgttgaatcatcccaaagtgctcttatctttttacctgggctaactgctgaccataggttatttgaaaaacaaatagaatattttaaagatacatatagagtcttggtttgggacgcacctggacatgcttcatcttatccatttcgtcttgattttactttatttgatttagcaacttggctggatgaaatatttgtcgaagagagaatagaaactccaatagtaattggtcagtca .........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 tgactgaccaattactattggagtttctattctctcttcgacaaatatttcatccagccaagttgctaaatcaaataaagtaaaatcaagacgaaatggataagatgaagcatgtccaggtgcgtcccaaaccaagactctatatgtatctttaaaatattctatttgtttttcaaataacctatggtcagcagttagcccaggtaaaaagataagagcactttgggatgattcaacagcatcatttgtccaataatgaattattccacttggtgtttcatatgttttttcaatcaaagttcaacactcgcattctaatttgtttaatctagtttatcgcaattgcactcattcctcttattagagtttctcaagtaggtccactagaacatatattctgcttac Mask Tandem Repeat Region ================================================ gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgaactttgattgaaaaaacatatgaaacaccaagtggaataattcattattggacaaatgatgctgttgaatcatcccaaagtgctcttatctttttacctgggctaactgctgaccataggttatttgaaaaacaaatagaatattttaaagatacatatagagtcttggtttgggacgcacctggacatgcttcatcttatccatttcgtcttgattttactttatttgatttagcaacttggctggatgaaatatttgtcgaagagagaatagaaactccaatagtaattggtcagtca Find is-nt database================================================ Query_seq: SSA_0994:SSA_0995|SSA_0994:SSA_0995:Peptidase E, putative:Antibiotic-resistance protein, alpha/beta superfamily hydrolase, putative:->->:995451..995855 405 gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgaactttgattgaaaaaacatatgaaacaccaagtggaataattcattattggacaaatgatgctgttgaatcatcccaaagtgctcttatctttttacctgggctaactgctgaccataggttatttgaaaaacaaatagaatattttaaagatacatatagagtcttggtttgggacgcacctggacatgcttcatcttatccatttcgtcttgattttactttatttgatttagcaacttggctggatgaaatatttgtcgaagagagaatagaaactccaatagtaattggtcagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0994:SSA_0995|SSA_0994:SSA_0995:Peptidase E, putative:Antibiotic-resistance protein, alpha/beta superfamily hydrolase, putative:->->:995451..995855 405 gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgaactttgattgaaaaaacatatgaaacaccaagtggaataattcattattggacaaatgatgctgttgaatcatcccaaagtgctcttatctttttacctgggctaactgctgaccataggttatttgaaaaacaaatagaatattttaaagatacatatagagtcttggtttgggacgcacctggacatgcttcatcttatccatttcgtcttgattttactttatttgatttagcaacttggctggatgaaatatttgtcgaagagagaatagaaactccaatagtaattggtcagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0994:SSA_0995|SSA_0994:SSA_0995:Peptidase E, putative:Antibiotic-resistance protein, alpha/beta superfamily hydrolase, putative:->->:995451..995855 405 gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgaactttgattgaaaaaacatatgaaacaccaagtggaataattcattattggacaaatgatgctgttgaatcatcccaaagtgctcttatctttttacctgggctaactgctgaccataggttatttgaaaaacaaatagaatattttaaagatacatatagagtcttggtttgggacgcacctggacatgcttcatcttatccatttcgtcttgattttactttatttgatttagcaacttggctggatgaaatatttgtcgaagagagaatagaaactccaatagtaattggtcagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 6 Min: 106 Max: 405 Len: 300 Subject: UniRef90_Q189H9 Cluster: Hypothetical protein; n=2; Clostridium difficile|Rep: Hypothetical protein - Clostridium difficile (strain 630) HSP 1 e-value: 4.0E-15 bit: 82.4 Len: 300 Query Start:106 Query End:405 Subject Strand: null Subject Start: 3 Subject End: 101 ......................................................................................................... T L I E K T Y E T P S G I I H Y W T N D A V E S S Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S ......................................................................................................... T M E E K Y I L S D R G K V Y Y W I K E S N S V F A K N L I F L P G L T A N H H L F D F Q I Q Y F S K N H N V L V W D A P A H G K S R P Y - L D F S Y S N L V E E L K V I L D K Q N M K K V V L I G Q S Subject: UniRef90_Q5WIZ7 Cluster: Antibiotic resistance protein; n=1; Bacillus clausii KSM-K16|Rep: Antibiotic resistance protein - Bacillus clausii (strain KSM-K16) HSP 1 e-value: 2.0E-9 bit: 63.5 Len: 297 Query Start:109 Query End:405 Subject Strand: null Subject Start: 3 Subject End: 99 ............................................................................................................ L I E K T Y E T P S G I I H Y W T N D A V E S S Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S ............................................................................................................ L K Q R V L E K D G C P I H Y W V T - - A N H R G P W L I F M H G A G T D H R M F A E Q L H V I D E T Y G L L L W D A R G H G L S R P I G T D F T I K L L I D D M L A I M T K E G I E K A T F I G Q S Subject: UniRef90_Q1Z9X2 Cluster: Hypothetical protein; n=1; Photobacterium profundum 3TCK|Rep: Hypothetical protein - Photobacterium profundum 3TCK HSP 1 e-value: 2.0E-6 bit: 53.9 Len: 225 Query Start:181 Query End:405 Subject Strand: null Subject Start: 50 Subject End: 124 .................................................................................................................................................................................... Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S .................................................................................................................................................................................... E T A L I F I H G W S L D S R L W Q N Q L G Y F S Q Q Y Q V I T M D L A G H G N S S F T R K E Y T M V A F A N D I K A V I E K E Q L D S V I L V G H S Subject: UniRef90_Q1YXW2 Cluster: Carboxylesterase; n=2; Photobacterium profundum 3TCK|Rep: Carboxylesterase - Photobacterium profundum 3TCK HSP 1 e-value: 2.0E-6 bit: 53.5 Len: 225 Query Start:181 Query End:405 Subject Strand: null Subject Start: 50 Subject End: 124 .................................................................................................................................................................................... Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S .................................................................................................................................................................................... E T A L I F I H G W S L D S R L W Q N Q L G Y F S Q Q Y Q V I T M D L A G H G N S S F N R K E Y T M V A F A N D I K A V I E K E Q L D S V I L V G H S Subject: UniRef90_A3XXG7 Cluster: 3-oxoadipate enol-lactonase; n=5; Vibrio|Rep: 3-oxoadipate enol-lactonase - Vibrio sp. MED222 HSP 1 e-value: 4.0E-6 bit: 52.8 Len: 231 Query Start:175 Query End:405 Subject Strand: null Subject Start: 48 Subject End: 124 .............................................................................................................................................................................. S S Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S .............................................................................................................................................................................. S G E T A L I F I H G W S L D S R L W Q N Q V S E F S K Q Y Q V I T M D L A G H G N S S F N R E E Y T M V A F A E D I K A V I E K E Q L E S V I L V G H S Subject: UniRef90_Q0W5M5 Cluster: Putative hydrolase; n=1; uncultured methanogenic archaeon RC-I|Rep: Putative hydrolase - Uncultured methanogenic archaeon RC-I HSP 1 e-value: 4.0E-6 bit: 52.8 Len: 291 Query Start:115 Query End:405 Subject Strand: null Subject Start: 11 Subject End: 105 .................................................................................................................. E K T Y E T P S G I I H Y W T N D A V E S S Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P G H A S S Y P F R L D F T L F D L A T W L D E I F V E E R I E T P I V I G Q S .................................................................................................................. E K T I S R P G C D V H Y W V S G - - N S S K P L I I L I H G A C A D H R Q F D M Q I P C L I Q D Y Q I V R V D V R G H G L S R P L A G P F S V P D A V E D I V S I L K E T G R N N A I F L G Q S gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 248 End: 337 ....................................................................................................................................................................................................................................................... M L K I H I E S W F G T H L D M L H L I H F V L I L L Y L I .................................................................... Protein_Len: 60 Strand: + Start: 109 End: 405 ............................................................................................................ M I E K T Y E T P S G I I H Y W T N D A V E S S Q S A L I F L P G L T A D H R L F E K Q I E Y F K D T Y R V L V W D A P Protein_Len: 30 Strand: - Start: 306 End: 395 ................................................................................................................................................................................................................................................................................................................. G N R R S K V K N S K A V Q S S S I N T S S L I S V G I T M .......... Protein_Len: 30 Strand: - Start: 153 End: 242 ........................................................................................................................................................ Q V F S A T S D D W L A R I K K G P S V A S W L N N S F C M ................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 77 End: 178 ............................................................................ I L C I L I R T N F K S Q F F M H F V L H F L E N N S L H H Q Q I M ................................................................................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 45 End: 146 ............................................ Y S S H T C N R Y V L N F L N S H S H Q V K I S F V Y S V G L P I M ................................................................................................................................................................................................................................................................... gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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================================================ gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0994:SSA_0995|SSA_0994:SSA_0995:Peptidase E, putative:Antibiotic-resistance protein, alpha/beta superfamily hydrolase, putative:->->:995451..995855 405 gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: NC_009009_SSA_0994_SSA_0995|Peptidase E, putative:Antibiotic-resistance protein, alpha/beta superfamily hydrolase, putative|POSITIVE:POSITIVE|[995451,995855]|405 HSP 1 e-value: 1.0E-52 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttga............................................................................................................................................................................................................................................................................................................ gtaagcagaatatatgttctagtggacctacttgagaaactctaataagaggaatgagtgcaattgcgataaactagattaaacaaattagaatgcgagtgttga............................................................................................................................................................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAAGCAGAAUAUAUGUUCUAGUGGACCUACUUGAGAAACUCUAAUAAGAGGAAUGAGUGCAAUUGCGAUAAACUAGAUUAAACAAAUUAGAAUGCGAGUGUUGA ....(((...((..(((((((((...(((.((((((.....))..)))))))......(((....)))....))))))....)))...))...)))......... (-16.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAACACUCGCAUUCUAAUUUGUUUAAUCUAGUUUAUCGCAAUUGCACUCAUUCCUCUUAUUAGAGUUUCUCAAGUAGGUCCACUAGAACAUAUAUUCUGCUUAC .........(((........(((....((((((.....((....))..........((((((.(((...))).))))))...))))))))).......))).... (-13.96) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 59 15 209 160 NC_009009:SSA_1678|5end_ABC-type_multidrug_transport_system,_permease_component,_putative_1672181..1672411_NEGATIVE 235 73 33 58 16 NC_009009:SSA_0784|5end_Proton-translocating_ATPase,_F0_sector,_subunit_b,_putative_767550..767780_POSITIVE 222 68 21 59 4 NC_009009:SSA_1412|5end_hypothetical_protein_1424095..1424325_NEGATIVE 222 68 21 194 139 NC_009009:SSA_1411|5end_Glucose-1-phosphate_thymidylytransferase,_putative_1423960..1424190_NEGATIVE 218 87 48 65 18 NC_009009:SSA_1680|5end_ABC-type_bacitracin_resistance_protein_A,_permease_component,_putative_1675200..1675430_NEGATIVE 217 41 4 212 153 NC_009009:SSA_1397|5end_hypothetical_protein_1410589..1410819_POSITIVE 214 69 27 55 3 NC_009009:SSA_0895|5end_ATP-binding_cassette_transporter-like_protein,_putative_886466..886696_POSITIVE 213 43 1 101 57 NC_009009:SSA_0384|5end_hypothetical_protein_376240..376470_POSITIVE 213 70 22 165 126 NC_009009:SSA_0073|5end_hypothetical_protein_77079..77309_POSITIVE 212 68 21 66 14 NC_009009:SSA_1018|5end_Zinc_metalloprotease_zmpC_precursor,_putative_1023346..1023576_POSITIVE 211 100 55 168 114 NC_009009:SSA_2000|5end_hypothetical_protein_1997469..1997699_NEGATIVE 210 82 48 66 32 NC_009009:SSA_1038|5end_Lipoprotein,_putative_1052579..1052809_POSITIVE 209 69 23 213 159 NC_009009:SSA_0663|5end_Acetyltransferase,_putative_648352..648582_POSITIVE 208 69 23 61 3 NC_009009:SSA_2207|5end_hypothetical_protein_2207221..2207451_NEGATIVE 208 78 34 54 4 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 208 59 13 199 162 NC_009009:SSA_2092|5end_Phosphotransferase_system_sugar-specific_EII_component,_putative_2095975..2096205_NEGATIVE 207 67 31 52 22 NC_009009:SSA_0037|5end_Phosphoribosylamine-glycine_ligase;_phosphoribosyl_glycinamide_synthetase_(GARS),_putative_44272..44502_POSITIVE 205 72 33 66 30 NC_009009:SSA_0610|5end_LemA-like_protein,_putative_598968..599198_POSITIVE 202 70 27 52 12 NC_009009:SSA_2072|5end_Phosphatidate_cytidylyltransferase,_putative_2075603..2075833_NEGATIVE 202 67 21 153 109 NC_009009:SSA_1791|5end_Acylphosphatase,_putative_1773676..1773906_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 53 14 144 94 NC_009009:SSA_2293|3end_hypothetical_protein_2295955..2296105_POSITIVE 222 68 21 59 4 NC_009009:SSA_1413|3end_GufA-like_protein,_putative_1424095..1424245_NEGATIVE 218 87 48 84 37 NC_009009:SSA_1681|3end_ABC-type_bacitracin_resistance_protein_A,_ATPase_component,_putative_1675181..1675331_NEGATIVE 213 70 22 141 102 NC_009009:SSA_0072|3end_ABC_sugar_transporter,_MsmK-like_protein,_putative_77135..77285_POSITIVE 209 60 21 151 105 NC_009009:SSA_1412|3end_hypothetical_protein_1423994..1424144_NEGATIVE 199 37 5 101 65 NC_009009:SSA_1791|3end_Acylphosphatase,_putative_1774034..1774184_POSITIVE 199 54 12 68 30 NC_009009:SSA_0135|3end_Multiple_antibiotic_resistance_operon_transcriptional_repressor_(MarR),_putative_131097..131247_POSITIVE 196 79 41 51 1 NC_009009:SSA_0075|3end_ABC_sugar_transporter,_permease_protein,_putative_79927..80077_POSITIVE 195 69 36 61 24 NC_009009:SSA_1859|3end_Penicillin-binding_protein-like_factor_A/_recombinase,_putative_1854386..1854536_POSITIVE 194 78 41 142 105 NC_009009:SSA_2020|3end_hypothetical_protein_2022471..2022621_POSITIVE 194 45 3 88 57 NC_009009:SSA_0307|3end_Glutamine_synthetase_type_1,_putative_304413..304563_POSITIVE 193 68 31 143 99 NC_009009:SSA_0589|3end_Acetylornithine_deacetylase/succinyl-diaminopimelate_desuccinylase_(M20/M25/M40_family_peptidase),_putative_582207..582357_POSITIVE 193 70 24 47 3 NC_009009:SSA_0309|3end_Glyoxalase/Bleomycin_resistance_protein/dioxygenase_domain,_putative_305393..305543_POSITIVE 192 63 21 35 3 NC_009009:SSA_0643|3end_hypothetical_protein_630072..630222_NEGATIVE 191 51 15 53 11 NC_009009:SSA_0903|3end_NAD(P)H_dehydrogenase_(quinone),_putative_893813..893963_POSITIVE 189 80 40 49 7 NC_009009:SSA_0894|3end_ATP-binding_cassette_protein,_putative_886533..886683_POSITIVE 189 67 26 144 98 NC_009009:SSA_0400|3end_hypothetical_protein_396470..396620_NEGATIVE 189 78 31 62 4 NC_009009:SSA_0350|3end_Helicase,_putative_341852..342002_NEGATIVE 186 70 21 144 95 NC_009009:SSA_1481|3end_FmtA-like_protein,_putative_1484826..1484976_NEGATIVE 186 53 17 122 77 NC_009009:SSA_0268|3end_Phosphotransferase_system_(PTS)_cellobiose-specific_component_IIB,_putative_262621..262771_POSITIVE