Origin IGS: taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacaaaccggagagcagtttttcgacctactcccggtaacttagaaaactctccaacagccttttcaagcagttgagaaggaaattgttgcatactaattgaacggttatactggctta Mask Tandem Repeat Region ================================================ taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Find is-nt database================================================ Query_seq: PI1093:PI1094|PI1093:PI1094:conserved hypothetical protein:recombination protein:->->:1019257..1019375 119 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1093:PI1094|PI1093:PI1094:conserved hypothetical protein:recombination protein:->->:1019257..1019375 119 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1093:PI1094|PI1093:PI1094:conserved hypothetical protein:recombination protein:->->:1019257..1019375 119 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 21 End: 119 .................... M S M Q Q F P S Q L L E K A V G E F S K L P G V G R K T A L R F V taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt 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================================================ taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1093:PI1094|PI1093:PI1094:conserved hypothetical protein:recombination protein:->->:1019257..1019375 119 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: pint_PI1093_PI1094|conserved hypothetical protein:recombination protein|POSITIVE:POSITIVE|[1019257,1019375]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt taagccagtataaccgttcaattagtatgcaacaatttccttctcaactgcttgaaaaggctgttggagagttttctaagttaccgggagtaggtcgaaaaactgctctccggtttgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCCAGUAUAACCGUUCAAUUAGUAUGCAACAAUUUCCUUCUCAACUGCUUGAAAAGGCUGUUGGAGAGUUUUCUAAGUUACCGGGAGUAGGUCGAAAAACUGCUCUCCGGUUUGUU .......(((((.............))))).((((....(((..((((.((((....)))).))))..)))...........(((((((((((.........)))))).))))))))). (-31.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAAACCGGAGAGCAGUUUUUCGACCUACUCCCGGUAACUUAGAAAACUCUCCAACAGCCUUUUCAAGCAGUUGAGAAGGAAAUUGUUGCAUACUAAUUGAACGGUUAUACUGGCUUA ....(((((..(((.(((((((..(..(((.....)))..)..))))))))))(((((.(((((((((....)))))))))....))))).............)))))........... (-29.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 88 43 172 127 pint:PI2133|5end_collagenase_2081106..2081336_POSITIVE 295 89 45 107 66 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 288 96 51 201 158 pint:PI0247|5end_conjugative_transposon_protein,_TraA_245373..245603_POSITIVE 283 60 12 143 87 pint:PI1342|5end_conserved_hypothetical_protein_1257057..1257287_POSITIVE 280 109 61 176 134 pint:PI1070|5end_peptidoglycan-associated_lipoprotein_986110..986340_POSITIVE 279 48 3 130 77 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 277 110 62 64 13 pint:PI1028|5end_glutamate_synthase,_small_subunit_943420..943650_POSITIVE 267 97 51 45 10 pint:PI0936|5end_conserved_hypothetical_protein_868329..868559_POSITIVE 262 71 33 206 162 pint:PI1729|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase,_trigger_factor_1648416..1648646_POSITIVE 258 97 51 85 20 pint:PI0246|5end_conserved_hypothetical_protein_244166..244396_POSITIVE 255 110 63 94 44 pint:PI0834|5end_conserved_hypothetical_protein_770785..771015_POSITIVE 254 107 61 79 12 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 253 100 52 219 169 pint:PI1608|5end_possible_Na+/H+_anti-porter_1535807..1536037_POSITIVE 253 107 62 163 128 pint:PI1135|5end_hypothetical_protein_1061935..1062165_POSITIVE 249 98 65 56 21 pint:PI2095|5end_hypothetical_protein_2049195..2049425_POSITIVE 249 98 65 51 16 pint:PI2093|5end_hypothetical_protein_2049190..2049420_POSITIVE 249 98 65 41 6 pint:PI2092|5end_hypothetical_protein_2049180..2049410_POSITIVE 249 56 15 187 151 pint:PI0844|5end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_777793..778023_POSITIVE 245 96 57 137 100 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 245 96 56 90 48 pint:PI0218|5end_conserved_hypothetical_protein_210770..211000_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 88 43 125 80 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 333 67 24 142 96 pint:PI1025|3end_tRNA_modification_GTPase_942232..942382_POSITIVE 265 70 22 149 88 pint:PI0425|3end_hypothetical_protein_389722..389872_POSITIVE 261 108 61 151 110 pint:PI1068|3end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_986166..986316_POSITIVE 259 109 61 89 41 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 259 110 62 98 36 pint:PI1290|3end_ATP_synthase,_beta_subunit_1204575..1204725_POSITIVE 258 97 51 97 32 pint:PI0245|3end_possible_mobilization_protein_244258..244408_POSITIVE 253 77 39 53 13 pint:PI0888|3end_hypothetical_protein_818613..818763_POSITIVE 253 89 41 81 32 pint:PI0315|3end_conserved_hypothetical_protein_298186..298336_POSITIVE 244 108 75 32 1 pint:PI0218|3end_conserved_hypothetical_protein_211149..211299_POSITIVE 239 86 48 141 102 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 238 107 61 126 89 pint:PI0343|3end_hypothetical_protein_317920..318070_POSITIVE 237 98 62 107 62 pint:PI1945|3end_ribonuclease_HII_1902587..1902737_POSITIVE 237 90 48 48 7 pint:PI1735|3end_conserved_hypothetical_protein_1654323..1654473_POSITIVE 237 89 46 48 4 pint:PI0991|3end_conserved_hypothetical_protein_916459..916609_POSITIVE 234 100 58 75 42 pint:PI1456|3end_conserved_hypothetical_protein_1379921..1380071_POSITIVE 234 90 46 61 6 pint:PI0431|3end_Xaa-Pro_aminopeptidase_404673..404823_POSITIVE 232 95 59 90 57 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 231 110 85 149 127 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 229 106 62 144 101 pint:PI1642|3end_conserved_hypothetical_protein_1560439..1560589_POSITIVE