Origin IGS: actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagataaaaacaatggtttagccatatcagacttatgcctgatagggctgaattgtatctaagaaaatgttatggtagatattgaggcttcttggaaacaacacttggagggggagtttacgaaaccttacttcacccaactcaccgaaagt Mask Tandem Repeat Region ================================================ actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Find is-nt database================================================ Query_seq: PI1918:PI1919|PI1918:PI1919:uracil-DNA glycosylase:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:->->:1862285..1862438 154 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1918:PI1919|PI1918:PI1919:uracil-DNA glycosylase:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:->->:1862285..1862438 154 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1918:PI1919|PI1918:PI1919:uracil-DNA glycosylase:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:->->:1862285..1862438 154 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 13 End: 117 ............ M G E V R F R K L P L Q V L F P R S L N I Y H N I F L D T I Q P Y Q A ..................................... actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta 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================================================ actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1918:PI1919|PI1918:PI1919:uracil-DNA glycosylase:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:->->:1862285..1862438 154 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: pint_PI1918_PI1919|uracil-DNA glycosylase:2,3-bisphosphoglycerate-independent phosphoglycerate mutase|POSITIVE:POSITIVE|[1862285,1862438]|154 HSP 1 e-value: 2.0E-82 bit: 305.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta actttcggtgagttgggtgaagtaaggtttcgtaaactccccctccaagtgttgtttccaagaagcctcaatatctaccataacattttcttagatacaattcagccctatcaggcataagtctgatatggctaaaccattgtttttatcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUCGGUGAGUUGGGUGAAGUAAGGUUUCGUAAACUCCCCCUCCAAGUGUUGUUUCCAAGAAGCCUCAAUAUCUACCAUAACAUUUUCUUAGAUACAAUUCAGCCCUAUCAGGCAUAAGUCUGAUAUGGCUAAACCAUUGUUUUUAUCUUUA ......(((..(((((((((.((.(((((((..((((..(.(......).)..))))....)))))))..)).)).))).))))...................((((.((((((((....)))))))).))))..)))................ (-35.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAUAAAAACAAUGGUUUAGCCAUAUCAGACUUAUGCCUGAUAGGGCUGAAUUGUAUCUAAGAAAAUGUUAUGGUAGAUAUUGAGGCUUCUUGGAAACAACACUUGGAGGGGGAGUUUACGAAACCUUACUUCACCCAACUCACCGAAAGU ..............(..((((((((.((((((.(....).)))))).))))))))..).((((((..((((((......))))))........(((....)))..))))))((((((((............))))).))).......(....). (-39.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 59 12 219 181 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 294 70 30 47 4 pint:PI1045|5end_cytidine/deoxycytidylate_deaminase_family_protein_965104..965334_POSITIVE 291 60 12 54 2 pint:PI1779|5end_16S_rRNA_processing_protein_1711335..1711565_POSITIVE 289 138 91 223 187 pint:PI0594|5end_possible_rare_lipoprotein_A_544388..544618_POSITIVE 287 52 12 216 159 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 284 44 3 126 94 pint:PI2154|5end_leucyl-tRNA_synthetase_2099861..2100091_POSITIVE 279 69 21 228 164 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 278 46 5 71 24 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 276 48 1 222 169 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 274 75 42 204 170 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 272 109 61 158 122 pint:PI0475|5end_50S_ribosomal_protein_L6_439453..439683_POSITIVE 270 80 31 90 31 pint:PI0362|5end_hypothetical_protein_333397..333627_POSITIVE 261 48 10 184 147 pint:PI1981|5end_hypothetical_protein_1937897..1938127_POSITIVE 260 69 21 223 168 pint:PI1573|5end_transcription-repair_coupling_factor_1496429..1496659_POSITIVE 260 70 22 144 65 pint:PI0330|5end_hypothetical_protein_310447..310677_POSITIVE 256 70 21 100 39 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 256 146 103 141 85 pint:PI1178|5end_histidyl-tRNA_synthetase_1099249..1099479_POSITIVE 256 60 12 90 33 pint:PI0380|5end_conserved_hypothetical_protein_350162..350392_POSITIVE 255 141 102 116 83 pint:PI2006|5end_potassium_uptake_system_protein_1964480..1964710_POSITIVE 254 45 7 164 111 pint:PI1884|5end_conserved_hypothetical_protein_1826883..1827113_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 55 15 85 46 pint:PI0582|3end_hypothetical_protein_525214..525364_POSITIVE 289 138 91 124 88 pint:PI0593|3end_NAD-specific_glutamate_dehydrogenase_544369..544519_POSITIVE 286 140 93 77 33 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 272 109 61 140 104 pint:PI0474|3end_30S_ribosomal_protein_S8_439515..439665_POSITIVE 270 80 31 85 26 pint:PI0360|3end_conserved_hypothetical_protein_333472..333622_POSITIVE 260 70 22 131 52 pint:PI0329|3end_hypothetical_protein_310514..310664_POSITIVE 257 34 1 127 90 pint:PI0258|3end_conjugative_transposon_protein,_TraG_252285..252435_POSITIVE 256 47 1 131 71 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 256 70 21 97 36 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 256 60 12 87 30 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 252 47 10 151 115 pint:PI1980|3end_conserved_hypothetical_protein_1937945..1938095_POSITIVE 249 59 11 104 49 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 248 40 6 126 89 pint:PI0897|3end_ferredoxin,_4Fe-4S_828537..828687_POSITIVE 242 69 32 140 107 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 240 119 78 118 76 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 239 45 1 135 80 pint:PI2061|3end_type_I_restriction_enzyme_restriction_subunit_2021647..2021797_POSITIVE 238 45 4 117 84 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 238 130 82 86 39 pint:PI0636|3end_hypothetical_protein_582213..582363_POSITIVE 237 49 3 51 3 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 237 142 105 43 3 pint:PI0350|3end_conserved_hypothetical_protein_324835..324985_POSITIVE