Origin IGS: aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat .........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 atctttatgcttttaatttgtaaaacttccttcgcacagaagggcttgcacactccattggagaatagctgtcgaagagctttctaagaagaaatgttttagcattttttctcgtggttgcaagcattacaaatccttccacgctgattggttcattacaaagatatagcttttggcgcaggaaatccccatgagtgggaaaataaccattccctatgcccccggctctagtccccgattctgtttttttgtgttgtttttgattttttcgttacttcctgcgtggtattcaacttctagctttcgtatacgactgcagcaccataaccacctgattcttttttttttgaggcagagtaaaaacatataaagtcccaaaatagcgcaacctcgaacaatcccctcctttgaggtatactacaatt Mask Tandem Repeat Region ================================================ aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Find is-nt database================================================ Query_seq: PG1895:PG1896|PG1895:PG1896:hypothetical protein:S-adenosylmethionine synthetase:->->:1994301..1994725 425 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1895:PG1896|PG1895:PG1896:hypothetical protein:S-adenosylmethionine synthetase:->->:1994301..1994725 425 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1895:PG1896|PG1895:PG1896:hypothetical protein:S-adenosylmethionine synthetase:->->:1994301..1994725 425 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 10 End: 126 ......... M P Q R R G L F E V A L F W D F I C F Y S A S K K K E S G G Y G A A V V Y E S ........................................................................................................................................................................................................................................................................................................... Protein_Len: 44 Strand: + Start: 2 End: 133 . M V V Y L K G G D C S R L R Y F G T L Y V F T L P Q K K K N Q V V M V L Q S Y T K A R S .................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 27 End: 209 .......................... M V R G C A I L G L Y M F L L C L K K K R I R W L W C C S R I R K L E V E Y H A G S N E K I K N N T K K Q N R G L E P G ........................................................................................................................................................................................................................ Protein_Len: 36 Strand: + Start: 303 End: 410 .............................................................................................................................................................................................................................................................................................................. M Q P R E K M L K H F F L E S S S T A I L Q W S V Q A L L C E G S F T N ............... Protein_Len: 60 Strand: + Start: 209 End: 418 ................................................................................................................................................................................................................ M G N G Y F P T H G D F L R Q K L Y L C N E P I S V E G F V M L A T T R K N A K T F L L R K L F D S Y S P M E C A S P S ....... Protein_Len: 34 Strand: - Start: 260 End: 361 ................................................................................................................................................................................................................................................................... I K T I F W D A H F S K Y H K C G R S F I S F C K K K S L E E V A M ................................................................ Protein_Len: 41 Strand: - Start: 235 End: 357 .......................................................................................................................................................................................................................................... P S K R R W F S Y R Q L S G I L T S P N T I S A V V L F F A L V N R R L F S K S M .................................................................... Protein_Len: 60 Strand: - Start: 59 End: 253 .......................................................... R L F F L I L H N H H Q L R I R F S S T S Y W A P L L S F I L F L V F F C F R P S S G P A Y P I T I K G S M P I E Q A M ............................................................................................................................................................................ aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat 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================================================ aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1895:PG1896|PG1895:PG1896:hypothetical protein:S-adenosylmethionine synthetase:->->:1994301..1994725 425 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacgaaaaaatcaaaaacaacacaaaaaaacagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat Intra-Species Hit: Count: 1 Min: 1 Max: 425 Len: 425 Subject: NC_002950_PG1895_PG1896|hypothetical protein:S-adenosylmethionine synthetase|POSITIVE:POSITIVE|[1994301,1994725]|425 HSP 1 e-value: 1.0E-135 bit: 482.0 Len: 243 Query Start:183 Query End:425 Subject Strand: POSITIVE Subject Start: 183 Subject End: 425 ......................................................................................................................................................................................cagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat ......................................................................................................................................................................................cagaatcggggactagagccgggggcatagggaatggttattttcccactcatggggatttcctgcgccaaaagctatatctttgtaatgaaccaatcagcgtggaaggatttgtaatgcttgcaaccacgagaaaaaatgctaaaacatttcttcttagaaagctcttcgacagctattctccaatggagtgtgcaagcccttctgtgcgaaggaagttttacaaattaaaagcataaagat HSP 2 e-value: 3.0E-65 bit: 250.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcnnnnnnnnnngaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacg............................................................................................................................................................................................................................................................................. aattgtagtatacctcaaaggaggggattgttcgaggttgcgctattttgggactttatatgtttttactctgcctcaaaaaaaaaagaatcaggtggttatggtgctgcagtcgtatacgaaagctagaagttgaataccacgcaggaagtaacg............................................................................................................................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUGUAGUAUACCUCAAAGGAGGGGAUUGUUCGAGGUUGCGCUAUUUUGGGACUUUAUAUGUUUUUACUCUGCCUCAAAAAAAAAAGAAUCAGGUGGUUAUGGUGCUGCAGUCGUAUACGAAAGCUAGAAGUUGAAUACCACGCAGGAAGUAACGAAAAAAUCAAAAACAACACAAAAAAACAGAAUCGGGGACUAGAGCCGGGGGCAUAGGGAAUGGUUAUUUUCCCACUCAUGGGGAUUUCCUGCGCCAAAAGCUAUAUCUUUGUAAUGAACCAAUCAGCGUGGAAGGAUUUGUAAUGCUUGCAACCACGAGAAAAAAUGCUAAAACAUUUCUUCUUAGAAAGCUCUUCGACAGCUAUUCUCCAAUGGAGUGUGCAAGCCCUUCUGUGCGAAGGAAGUUUUACAAAUUAAAAGCAUAAAGAU ..(((((((((((..((..((((((..((((.((((((..((((...((((.........(((((((..((((..((..........))..))))..(((((..(.((((.((.((((.(((..........))).)))).)))))).).))))).........)))))))...........((....((((((....(((....(((.(((((((........((((((....))))))))))))).)))....)))...))))))...))..))))..))))..)..((..(((((.....)))))))..(((((.(((((......))))).)))))........)))))))))...))))))..))..))))))....(((((.....)))))......)))))................. (-100.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUUAUGCUUUUAAUUUGUAAAACUUCCUUCGCACAGAAGGGCUUGCACACUCCAUUGGAGAAUAGCUGUCGAAGAGCUUUCUAAGAAGAAAUGUUUUAGCAUUUUUUCUCGUGGUUGCAAGCAUUACAAAUCCUUCCACGCUGAUUGGUUCAUUACAAAGAUAUAGCUUUUGGCGCAGGAAAUCCCCAUGAGUGGGAAAAUAACCAUUCCCUAUGCCCCCGGCUCUAGUCCCCGAUUCUGUUUUUUUGUGUUGUUUUUGAUUUUUUCGUUACUUCCUGCGUGGUAUUCAACUUCUAGCUUUCGUAUACGACUGCAGCACCAUAACCACCUGAUUCUUUUUUUUUUGAGGCAGAGUAAAAACAUAUAAAGUCCCAAAAUAGCGCAACCUCGAACAAUCCCCUCCUUUGAGGUAUACUACAAUU .....((((((((..((((((((.....(((((.....)))))(((((((....((((...((((.((((.......)))))))).(((((((((((....))))))))))).)))).))))))).))))))))...........(((((.(((........(((..((((...((((.(((..........((((((........))))))))).))))...))))...)))...............((((((((((((.((((((....(((((..(((((((((.........((.((..(((....)))..)))).......)))))......(((........))))))))))))........))))))..))))))))))))....)))))))).........))))))))........ (-99.89) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 402 54 19 189 150 NC_002950:PG2163|5end_acid_phosphatase_2269571..2269801_NEGATIVE 375 399 353 145 103 NC_002950:PG0145|5end_hypothetical_protein_167831..168061_POSITIVE 356 58 13 176 127 NC_002950:PG1816|5end_NAD(P)H_dehydrogenase,_quinone_family,_putative_1911951..1912181_NEGATIVE 355 228 181 124 82 NC_002950:PG2073|5end_hypothetical_protein_2174374..2174604_NEGATIVE 355 228 181 124 82 NC_002950:PG1669|5end_hypothetical_protein_1755566..1755796_NEGATIVE 355 228 181 124 82 NC_002950:PG1264|5end_hypothetical_protein_1344895..1345125_NEGATIVE 355 228 181 124 82 NC_002950:PG0103|5end_hypothetical_protein_121290..121520_POSITIVE 350 238 192 198 151 NC_002950:PG1184|5end_alginate_O-acetyltransferase,_putative_1266870..1267100_NEGATIVE 347 136 94 227 178 NC_002950:PG0680|5end_efflux_transporter,_MFP_component,_RND_family_730968..731198_POSITIVE 345 149 107 205 155 NC_002950:PG2172|5end_hypothetical_protein_2279937..2280167_NEGATIVE 345 390 346 210 163 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 342 390 345 83 38 NC_002950:PG0608|5end_hypothetical_protein_662945..663175_POSITIVE 338 397 351 95 45 NC_002950:PG0343|5end_methionine_gamma-lyase_378362..378592_NEGATIVE 337 385 345 203 155 NC_002950:PG1185|5end_hypothetical_protein_1267752..1267982_NEGATIVE 336 244 201 227 188 NC_002950:PG1449|5end_hypothetical_protein_1534262..1534492_NEGATIVE 336 244 201 227 188 NC_002950:PG0824|5end_hypothetical_protein_881170..881400_POSITIVE 331 388 347 110 65 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 331 388 347 110 65 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 331 388 347 110 65 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 329 393 353 142 92 NC_002950:PG1959|5end_ribosomal_protein_L33_2048405..2048635_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 387 404 361 56 17 NC_002950:PG1118|3end_clpB_protein_1192083..1192233_NEGATIVE 370 249 202 99 46 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 350 250 201 88 33 NC_002950:PG1829|3end_long-chain-fatty-acid--CoA_ligase,_putative_1921307..1921457_NEGATIVE 348 247 205 148 112 NC_002950:PG0489|3end_polysaccharide_biosynthesis-related_protein_530808..530958_POSITIVE 347 229 184 101 54 NC_002950:PG0173|3end_transcriptional_regulator,_putative_194388..194538_NEGATIVE 342 398 355 151 100 NC_002950:PG1795|3end_hypothetical_protein_1888955..1889105_NEGATIVE 342 52 13 122 76 NC_002950:PG1677|3end_phosphoglycerate_kinase_1763678..1763828_POSITIVE 342 390 345 52 7 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 338 288 241 59 11 NC_002950:PG1170|3end_SerB_family_protein_1250115..1250265_POSITIVE 333 249 201 67 24 NC_002950:PG1416|3end_enoyl-(acyl-carrier-protein)_reductase_II_1501078..1501228_POSITIVE 331 228 184 108 67 NC_002950:PG1831|3end_ATP-dependent_DNA_helicase_RecQ_1923455..1923605_NEGATIVE 329 393 353 123 73 NC_002950:PG1960|3end_ribosomal_protein_L28_2048424..2048574_NEGATIVE 327 239 197 84 23 NC_002950:PG2033|3end_glutamate_synthase,_small_subunit_2133415..2133565_NEGATIVE 326 56 13 106 57 NC_002950:PG1874|3end_hypothetical_protein_1969253..1969403_NEGATIVE 326 380 342 70 27 NC_002950:PG0524|3end_hypothetical_protein_568963..569113_POSITIVE 324 230 183 134 92 NC_002950:PG0488|3end_Holliday_junction_DNA_helicase_RuvB_529280..529430_POSITIVE 321 257 219 141 101 NC_002950:PG1221|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_1298934..1299084_POSITIVE 317 240 192 67 14 NC_002950:PG1777|3end_hypothetical_protein_1867105..1867255_POSITIVE 316 397 355 136 88 NC_002950:PG0542|3end_hypothetical_protein_595377..595527_NEGATIVE 315 228 187 81 41 NC_002950:PG0364|3end_hypothetical_protein_398410..398560_NEGATIVE