Origin IGS: ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtggagttttccatattgattattaaggtgcaccgggacttctgtttcggtgctcttttttgtggcaaatcaagtccgcatgcatcaatgtttttatgtgccaaaagttttcaacgacgaggaggaatttggaa Mask Tandem Repeat Region ================================================ ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Find is-nt database================================================ Query_seq: PG2166:PG2167|PG2166:PG2167:hypothetical protein:immunoreactive 53 kDa antigen PG123:-><-:2272060..2272193 134 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2166:PG2167|PG2166:PG2167:hypothetical protein:immunoreactive 53 kDa antigen PG123:-><-:2272060..2272193 134 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2166:PG2167|PG2166:PG2167:hypothetical protein:immunoreactive 53 kDa antigen PG123:-><-:2272060..2272193 134 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 31 End: 132 .............................. M A H K N I D A C G L D L P Q K R A P K Q K S R C T L I I N M E N S .. Protein_Len: 44 Strand: - Start: 3 End: 134 .. W I G G R R Q F S K A C L F M S A H P S S K G C F L A G F C F D R H V K I I L I S F E M Protein_Len: 31 Strand: - Start: 1 End: 93 E L N R R T T S F K Q C M F V N I C A S K I Q W L F S C R F M ......................................... ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac 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================================================ ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2166:PG2167|PG2166:PG2167:hypothetical protein:immunoreactive 53 kDa antigen PG123:-><-:2272060..2272193 134 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_002950_PG2166_PG2167|hypothetical protein:immunoreactive 53 kDa antigen PG123|POSITIVE:NEGATIVE|[2272060,2272193]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac ttccaaattcctcctcgtcgttgaaaacttttggcacataaaaacattgatgcatgcggacttgatttgccacaaaaaagagcaccgaaacagaagtcccggtgcaccttaataatcaatatggaaaactccac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCAAAUUCCUCCUCGUCGUUGAAAACUUUUGGCACAUAAAAACAUUGAUGCAUGCGGACUUGAUUUGCCACAAAAAAGAGCACCGAAACAGAAGUCCCGGUGCACCUUAAUAAUCAAUAUGGAAAACUCCAC (((((...........((.((..((....))..))))........((((((...((.((.(.......))).)).......((((((..((....))..)))))).........)))))).)))))........ (-26.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGGAGUUUUCCAUAUUGAUUAUUAAGGUGCACCGGGACUUCUGUUUCGGUGCUCUUUUUUGUGGCAAAUCAAGUCCGCAUGCAUCAAUGUUUUUAUGUGCCAAAAGUUUUCAACGACGAGGAGGAAUUUGGAA (((((((((.(((((.........((((.((((((..((....))..)))))).))))..))))).))))....)))))..((((.((....)).)))).(((((..(((((........)))))..))))).. (-37.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 370 35 1 85 49 NC_002950:PG1357|5end_hypothetical_protein_1436458..1436688_NEGATIVE 347 110 70 192 153 NC_002950:PG2028|5end_ebsC_protein_2126027..2126257_POSITIVE 326 39 1 126 86 NC_002950:PG0609|5end_hypothetical_protein_663183..663413_POSITIVE 320 100 55 52 6 NC_002950:PG0622|5end_hypothetical_protein_675937..676167_POSITIVE 319 39 1 72 31 NC_002950:PG0773|5end_hypothetical_protein_825131..825361_POSITIVE 312 50 1 72 19 NC_002950:PG0995|5end_hypothetical_protein_1055585..1055815_NEGATIVE 305 103 71 206 172 NC_002950:PG2127|5end_hypothetical_protein_2233552..2233782_NEGATIVE 293 105 61 164 109 NC_002950:PG0882|5end_hypothetical_protein_944195..944425_POSITIVE 289 110 63 50 1 NC_002950:PG0428|5end_hypothetical_protein_465977..466207_NEGATIVE 283 98 53 196 141 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 282 107 63 224 172 NC_002950:PG0274|5end_hypothetical_protein_306333..306563_POSITIVE 280 71 33 70 26 NC_002950:PG2162|5end_lipid_A_disaccharide_synthase_2268764..2268994_NEGATIVE 279 107 80 197 171 NC_002950:PG2144|5end_hypothetical_protein_2249911..2250141_POSITIVE 277 85 47 166 133 NC_002950:PG1981|5end_CRISPR-associated_protein_Cas2_2069505..2069735_NEGATIVE 276 88 50 43 1 NC_002950:PG2103|5end_hypothetical_protein_2213360..2213590_NEGATIVE 275 105 64 86 49 NC_002950:PG2145|5end_polysaccharide_deacetylase_2253253..2253483_POSITIVE 274 88 46 72 28 NC_002950:PG1795|5end_hypothetical_protein_1889776..1890006_NEGATIVE 274 72 32 165 108 NC_002950:PG0415|5end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_455096..455326_NEGATIVE 273 105 68 209 157 NC_002950:PG1872|5end_urocanate_hydratase_1968911..1969141_NEGATIVE 273 108 80 213 181 NC_002950:PG1105|5end_RNA_polymerase_sigma-54_factor_1177173..1177403_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 108 61 59 6 NC_002950:PG0535|3end_hypothetical_protein_585956..586106_NEGATIVE 320 100 55 55 9 NC_002950:PG0621|3end_hypothetical_protein_676020..676170_POSITIVE 319 39 1 65 24 NC_002950:PG0772|3end_hypothetical_protein_825204..825354_POSITIVE 281 99 55 130 83 NC_002950:PG0445|3end_peptidase_T_486549..486699_POSITIVE 279 107 80 146 120 NC_002950:PG2143|3end_GTP-binding_protein_EngA_2249940..2250090_POSITIVE 278 34 1 55 20 NC_002950:PG1868|3end_hypothetical_protein_1965098..1965248_NEGATIVE 278 112 78 60 31 NC_002950:PG0881|3end_recombinase_A_944165..944315_POSITIVE 277 85 47 146 113 NC_002950:PG1982|3end_CRISPR-associated_protein_Cas1_2069525..2069675_NEGATIVE 275 105 64 43 6 NC_002950:PG2144|3end_hypothetical_protein_2253290..2253440_POSITIVE 274 72 32 128 71 NC_002950:PG0416|3end_ATP-dependent_DNA_helicase_RecQ_455133..455283_NEGATIVE 271 100 55 128 74 NC_002950:PG1757|3end_hypothetical_protein_1843931..1844081_NEGATIVE 259 87 47 143 102 NC_002950:PG1063|3end_transcriptional_regulator,_putative_1131576..1131726_POSITIVE 259 110 83 63 21 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 256 100 55 52 4 NC_002950:PG0132|3end_hypothetical_protein_153054..153204_POSITIVE 253 110 78 57 16 NC_002950:PG2010|3end_phosphomannomutase,_putative_2100952..2101102_POSITIVE 252 110 61 100 53 NC_002950:PG1640|3end_DNA-damage-inducible_protein_F_1719935..1720085_NEGATIVE 252 109 70 37 7 NC_002950:PG0471|3end_hypothetical_protein_513432..513582_POSITIVE 249 109 77 58 31 NC_002950:PG1472|3end_hypothetical_protein_1549760..1549910_POSITIVE 248 118 72 65 21 NC_002950:PG0302|3end_hypothetical_protein_338721..338871_POSITIVE 247 105 64 45 9 NC_002950:PG0286|3end_hypothetical_protein_320454..320604_POSITIVE