Origin IGS: gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa .........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 ttatgtttcacaacacttctcaacttaagttacagccatataaaaaggcgttatcgcaaatttaggataaaagagccaagaaacaacagagggagaaagagcggccggacttaaaaagaaaaggccttctaaatctgcattttgttcgcagaatctaaaaggcctgttcaaaagttaatacgatcaagaaaaacggaggatgtccgtaatctcttccgaaagagataggc Mask Tandem Repeat Region ================================================ gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Find is-nt database================================================ Query_seq: PG0625:PG0626|PG0625:PG0626:GTP cyclohydrolase I:hypothetical protein:->->:679310..679539 230 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0625:PG0626|PG0625:PG0626:GTP cyclohydrolase I:hypothetical protein:->->:679310..679539 230 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0625:PG0626|PG0625:PG0626:GTP cyclohydrolase I:hypothetical protein:->->:679310..679539 230 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 77 End: 166 ............................................................................ M L R T K C R F R R P F L F K S G R S F S L C C F L A L L S ................................................................ Protein_Len: 48 Strand: + Start: 60 End: 203 ........................................................... M N R P F R F C E Q N A D L E G L F F L S P A A L S P S V V S W L F Y P K F A I T P F Y M A V T ........................... Protein_Len: 32 Strand: - Start: 6 End: 98 ..... * R K R F L N R V D E T K R S R I L K Q V P R K S E A F L I C M .................................................................................................................................... gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa 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================================================ gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 88 HP_score: -9.0 Tail_Score: -4.65895 Start: 62 End: 113 Full_Region: ATCGTATTAACTTTT GAACAGGCCTTTTAGATTCTGCG AACAAAA TGCAGATTTAGAAGGCCTTTTC TTTTTAAGTCCGGCC .............................................................GAACAGGCCTTTTAGATTCTGCGAACAAAATGCAGATTTAGAAGGCCTTTTC..................................................................................................................... TransTerm Strand: + Conf: 90 HP_score: -7.5 Tail_Score: -5.2853 Start: 67 End: 108 Full_Region: ATTAACTTTTGAACA GGCCTTTTAGATTCTGCG AACAAAA TGCAGATTTAGAAGGCC TTTTCTTTTTAAGTC ..................................................................GGCCTTTTAGATTCTGCGAACAAAATGCAGATTTAGAAGGCC.......................................................................................................................... TransTerm Strand: - Conf: 42 HP_score: -2.4 Tail_Score: -3.04501 Start: 67 End: 108 Full_Region: gacttaaaaagaaaa ggccttctaaatctgc attttgttc gcagaatctaaaaggcc tgttcaaaagttaat ..................................................................ggccttctaaatctgcattttgttcgcagaatctaaaaggcc.......................................................................................................................... Find igs database================================================ Query_seq: PG0625:PG0626|PG0625:PG0626:GTP cyclohydrolase I:hypothetical protein:->->:679310..679539 230 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Intra-Species Hit: Count: 1 Min: 1 Max: 230 Len: 230 Subject: NC_002950_PG0625_PG0626|GTP cyclohydrolase I:hypothetical protein|POSITIVE:POSITIVE|[679310,679539]|230 HSP 1 e-value: 1.0E-127 bit: 456.0 Len: 230 Query Start:1 Query End:230 Subject Strand: POSITIVE Subject Start: 1 Subject End: 230 gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa gcctatctctttcggaagagattacggacatcctccgtttttcttgatcgtattaacttttgaacaggccttttagattctgcgaacaaaatgcagatttagaaggccttttctttttaagtccggccgctctttctccctctgttgtttcttggctcttttatcctaaatttgcgataacgcctttttatatggctgtaacttaagttgagaagtgttgtgaaacataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCUAUCUCUUUCGGAAGAGAUUACGGACAUCCUCCGUUUUUCUUGAUCGUAUUAACUUUUGAACAGGCCUUUUAGAUUCUGCGAACAAAAUGCAGAUUUAGAAGGCCUUUUCUUUUUAAGUCCGGCCGCUCUUUCUCCCUCUGUUGUUUCUUGGCUCUUUUAUCCUAAAUUUGCGAUAACGCCUUUUUAUAUGGCUGUAACUUAAGUUGAGAAGUGUUGUGAAACAUAA .............(((((((....(((((......((.((.....)).))...........(((.(((((((((((((.(((((.......)))))))))))))))))).))).......)))))....))))))).........((((((.((((.(((((...((.((.(((((.....(((.........)))))))).)).))...))))).)))).))))))... (-60.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUGUUUCACAACACUUCUCAACUUAAGUUACAGCCAUAUAAAAAGGCGUUAUCGCAAAUUUAGGAUAAAAGAGCCAAGAAACAACAGAGGGAGAAAGAGCGGCCGGACUUAAAAAGAAAAGGCCUUCUAAAUCUGCAUUUUGUUCGCAGAAUCUAAAAGGCCUGUUCAAAAGUUAAUACGAUCAAGAAAAACGGAGGAUGUCCGUAAUCUCUUCCGAAAGAGAUAGGC ...((((((............(((....)))...............(((.(((((..........)))))....)))..)))))).....((((((..((.((....(((((.....(((.(((((((.((..(((((.........)))))...)).))))))).)))..)))))....)).)).......(((((.....)))))....))))))............. (-52.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 392 49 6 189 131 NC_002950:PG0282|5end_ABC_transporter,_ATP-binding_protein_316915..317145_NEGATIVE 390 50 3 208 153 NC_002950:PG0226|5end_transglutaminase-related_protein_262531..262761_NEGATIVE 378 45 1 70 20 NC_002950:PG0062|5end_TPR_domain_protein_73688..73918_POSITIVE 359 147 101 225 170 NC_002950:PG0333|5end_hypothetical_protein_367823..368053_POSITIVE 353 144 103 207 162 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 351 157 121 110 65 NC_002950:PG1901|5end_ribosome_releasing_factor_2001352..2001582_NEGATIVE 351 166 125 185 146 NC_002950:PG1719|5end_ABC_transporter,_ATP-binding_protein,_MsbA_family_1806749..1806979_POSITIVE 330 147 107 150 102 NC_002950:PG0715|5end_transporter_769596..769826_NEGATIVE 329 156 123 52 27 NC_002950:PG0718|5end_hypothetical_protein_771573..771803_NEGATIVE 327 140 96 87 36 NC_002950:PG1482|5end_conjugative_transposon_protein_TraF_1558779..1559009_NEGATIVE 326 169 122 206 167 NC_002950:PG0650|5end_hypothetical_protein_702964..703194_NEGATIVE 325 160 122 205 167 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 323 143 101 170 114 NC_002950:PG1978|5end_hypothetical_protein_2067337..2067567_NEGATIVE 322 155 119 30 3 NC_002950:PG1525|5end_isochorismate_synthase,_putative_1603865..1604095_NEGATIVE 321 148 105 214 166 NC_002950:PG1814|5end_DNA_primase_1910627..1910857_NEGATIVE 320 137 94 231 194 NC_002950:PG0256|5end_CvpA_family_protein_289509..289739_POSITIVE 319 150 101 183 133 NC_002950:PG1217|5end_hypothetical_protein_1295575..1295805_POSITIVE 319 140 102 202 154 NC_002950:PG0148|5end_sigma-54-dependent_transcriptional_regulator_170907..171137_NEGATIVE 315 54 11 201 164 NC_002950:PG0419|5end_hypothetical_protein_460607..460837_NEGATIVE 312 140 91 80 24 NC_002950:PG1391|5end_hypothetical_protein_1471670..1471900_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 392 49 6 109 51 NC_002950:PG0283|3end_efflux_transporter,_MFP_component,_RND_family_316995..317145_NEGATIVE 390 50 3 146 91 NC_002950:PG0227|3end_DNA_repair_protein_RadA_262593..262743_NEGATIVE 378 45 1 65 15 NC_002950:PG0061|3end_yngK_protein_73763..73913_POSITIVE 337 167 122 118 53 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 328 139 92 139 101 NC_002950:PG2047|3end_helicase,_putative_2145758..2145908_NEGATIVE 328 164 124 110 68 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 327 140 96 83 32 NC_002950:PG1483|3end_conjugative_transposon_protein_TraE_1558783..1558933_NEGATIVE 326 169 122 99 60 NC_002950:PG0651|3end_HDIG_domain_protein_703071..703221_NEGATIVE 324 165 122 102 60 NC_002950:PG0618|3end_alkyl_hydroperoxide_reductase,_C_subunit_671018..671168_POSITIVE 322 50 1 109 50 NC_002950:PG1392|3end_rod_shape-determining_protein_RodA,_putative_1472959..1473109_NEGATIVE 313 146 101 73 27 NC_002950:PG1421|3end_ferredoxin,_4Fe-4S_1506874..1507024_NEGATIVE 311 160 123 84 40 NC_002950:PG1630|3end_hypothetical_protein_1712142..1712292_POSITIVE 310 167 124 112 71 NC_002950:PG0400|3end_hypothetical_protein_436245..436395_NEGATIVE 310 162 121 146 99 NC_002950:PG0344|3end_purple_acid_phosphatase_378543..378693_NEGATIVE 306 37 1 151 105 NC_002950:PG0759|3end_TPR_domain_protein_808632..808782_NEGATIVE 305 150 104 130 64 NC_002950:PG0786|3end_hypothetical_protein_837570..837720_NEGATIVE 305 147 106 77 34 NC_002950:PG0471|3end_hypothetical_protein_513432..513582_POSITIVE 303 138 93 67 29 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 301 144 107 150 114 NC_002950:PG2076|3end_hypothetical_protein_2177073..2177223_POSITIVE 299 160 120 145 95 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE