Origin IGS: aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa .........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 ttgtgtcttatgtggaattcatctcgtttccctctgtaatacagcattcgatgcgaggatacgataggatttttttatttttgagaccaacaaaaaagaataccccctcgactatagaaaacacaaggcgcggaaaggagagttgtccgatcttcacctttctgtatccgatagagggagattagagacctgactgtaaaaagtagattt Mask Tandem Repeat Region ================================================ aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Find is-nt database================================================ Query_seq: PG1903:PG1904|PG1903:PG1904:hypothetical protein:hypothetical protein:<-<-:2004312..2004521 210 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1903:PG1904|PG1903:PG1904:hypothetical protein:hypothetical protein:<-<-:2004312..2004521 210 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1903:PG1904|PG1903:PG1904:hypothetical protein:hypothetical protein:<-<-:2004312..2004521 210 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 29 End: 133 ............................ M S L Y R I Q K G E D R T T L L S A P C V F Y S R G G I L F C W S Q K ............................................................................. Protein_Len: 54 Strand: + Start: 39 End: 200 ...................................... M G Y R K V K I G Q L S F P R L V F S I V E G V F F F V G L K N K K I L S Y P R I E C C I T E G N E M N S T .......... Protein_Len: 60 Strand: - Start: 29 End: 208 ............................ D G E I P Y L F T F I P C S E K G R R T N E I T S P T N K K T P R L F L F I R D Y G R M S H Q I V S P F S I F E V Y S M .. Protein_Len: 38 Strand: - Start: 21 End: 134 .................... T E L R G R D S V S L H L D S L E G K R A K H K R Y D L P Y E K K N T E F M ............................................................................ aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa 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================================================ aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1903:PG1904|PG1903:PG1904:hypothetical protein:hypothetical protein:<-<-:2004312..2004521 210 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctcaaaaataaaaaaatcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Intra-Species Hit: Count: 1 Min: 1 Max: 210 Len: 210 Subject: NC_002950_PG1903_PG1904|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2004312,2004521]|210 HSP 1 e-value: 1.0E-66 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctc.................................................................................. aaatctactttttacagtcaggtctctaatctccctctatcggatacagaaaggtgaagatcggacaactctcctttccgcgccttgtgttttctatagtcgagggggtattcttttttgttggtctc.................................................................................. HSP 2 e-value: 2.0E-31 bit: 137.0 Len: 69 Query Start:142 Query End:210 Subject Strand: POSITIVE Subject Start: 142 Subject End: 210 .............................................................................................................................................tcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa .............................................................................................................................................tcctatcgtatcctcgcatcgaatgctgtattacagagggaaacgagatgaattccacataagacacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCUACUUUUUACAGUCAGGUCUCUAAUCUCCCUCUAUCGGAUACAGAAAGGUGAAGAUCGGACAACUCUCCUUUCCGCGCCUUGUGUUUUCUAUAGUCGAGGGGGUAUUCUUUUUUGUUGGUCUCAAAAAUAAAAAAAUCCUAUCGUAUCCUCGCAUCGAAUGCUGUAUUACAGAGGGAAACGAGAUGAAUUCCACAUAAGACACAA ................(((..(((((.....(((((((....(((((((.((((((..((..(((......)))..))..))))))............(.((((((((((...(((((((((.........)))))))))....))))...)))))))........)))))))..)))))))...)))))(.....)......))).... (-48.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUGUCUUAUGUGGAAUUCAUCUCGUUUCCCUCUGUAAUACAGCAUUCGAUGCGAGGAUACGAUAGGAUUUUUUUAUUUUUGAGACCAACAAAAAAGAAUACCCCCUCGACUAUAGAAAACACAAGGCGCGGAAAGGAGAGUUGUCCGAUCUUCACCUUUCUGUAUCCGAUAGAGGGAGAUUAGAGACCUGACUGUAAAAAGUAGAUUU ....(((......((...((.(((.((((((((((((......((((...))))..(((((((.......((((((((..(((((.....................)))))..))))))))...((((.(.(((..(((......)))..))).).))))..))))))).)))))))))))).))))))).)))................ (-50.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1013 110 61 201 152 NC_002950:PG1903|5end_hypothetical_protein_2004221..2004451_NEGATIVE 361 127 81 80 26 NC_002950:PG0072|5end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acyltransferase_87147..87377_NEGATIVE 356 96 52 148 98 NC_002950:PG1876|5end_hypothetical_protein_1971460..1971690_NEGATIVE 338 119 71 84 43 NC_002950:PG1017|5end_pyruvate_phosphate_dikinase_1076138..1076368_POSITIVE 328 102 62 98 53 NC_002950:PG0897|5end_alpha-amylase_family_protein_962472..962702_NEGATIVE 323 93 53 230 186 NC_002950:PG1366|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1447380..1447610_NEGATIVE 317 109 61 152 99 NC_002950:PG2098|5end_hypothetical_protein_2206635..2206865_NEGATIVE 315 109 70 163 134 NC_002950:PG0636|5end_MATE_efflux_family_protein_689071..689301_NEGATIVE 315 89 41 214 151 NC_002950:PG0156|5end_modification_methylase,_HemK_family_178828..179058_POSITIVE 313 186 141 160 103 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 310 128 82 171 137 NC_002950:PG1467|5end_methlytransferase,_UbiE/COQ5_family_1543210..1543440_POSITIVE 309 187 144 134 89 NC_002950:PG1654|5end_D-alanyl-D-alanine_dipeptidase_1736458..1736688_POSITIVE 309 125 82 70 18 NC_002950:PG0347|5end_UDP-glucose_4-epimerase_381274..381504_POSITIVE 308 104 65 226 192 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 307 87 41 107 41 NC_002950:PG2212|5end_hypothetical_protein_2324767..2324997_NEGATIVE 307 84 51 160 131 NC_002950:PG1403|5end_rhomboid_family_protein_1487039..1487269_NEGATIVE 306 109 63 225 180 NC_002950:PG1790|5end_hypothetical_protein_1880954..1881184_NEGATIVE 305 108 61 159 107 NC_002950:PG1599|5end_hypothetical_protein_1679087..1679317_POSITIVE 305 65 22 60 15 NC_002950:PG0285|5end_hypothetical_protein_318459..318689_POSITIVE 304 127 82 130 82 NC_002950:PG1018|5end_hypothetical_protein_1078894..1079124_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 109 62 91 37 NC_002950:PG1741|3end_aspartate_ammonia-lyase_1825856..1826006_NEGATIVE 356 96 52 119 69 NC_002950:PG1877|3end_Na+/H+_antiporter_1971489..1971639_NEGATIVE 355 108 61 73 22 NC_002950:PG0332|3end_transcription_termination_factor_Rho_367675..367825_POSITIVE 345 125 84 84 36 NC_002950:PG0945|3end_ABC_transporter,_permease_protein,_putative_1005104..1005254_NEGATIVE 342 130 82 61 9 NC_002950:PG0491|3end_hypothetical_protein_534402..534552_POSITIVE 332 118 71 114 57 NC_002950:PG1505|3end_radical_SAM_domain_protein_1583201..1583351_POSITIVE 327 65 21 49 1 NC_002950:PG2072|3end_UvrD/REP_helicase_domain_protein_2170757..2170907_POSITIVE 326 108 61 114 47 NC_002950:PG1600|3end_hypothetical_protein_1679959..1680109_NEGATIVE 324 80 31 81 21 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 322 110 63 88 33 NC_002950:PG2010|3end_phosphomannomutase,_putative_2100952..2101102_POSITIVE 320 87 41 117 81 NC_002950:PG2040|3end_DNA-binding_protein,_histone-like_family_2138398..2138548_NEGATIVE 319 127 81 60 14 NC_002950:PG1343|3end_lipoate-protein_ligase_B_1425186..1425336_POSITIVE 317 109 61 138 85 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 315 108 62 103 61 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 310 120 73 85 24 NC_002950:PG1829|3end_long-chain-fatty-acid--CoA_ligase,_putative_1921307..1921457_NEGATIVE 310 81 42 91 55 NC_002950:PG0199|3end_TatD_family_protein_237424..237574_NEGATIVE 309 187 144 54 9 NC_002950:PG1653|3end_hypothetical_protein_1736458..1736608_POSITIVE 309 125 82 60 8 NC_002950:PG0346|3end_GTP-binding_protein_381344..381494_POSITIVE 307 84 51 128 99 NC_002950:PG1404|3end_rhomboid_family_protein_1487071..1487221_NEGATIVE 307 108 70 78 43 NC_002950:PG0397|3end_hypothetical_protein_434312..434462_NEGATIVE