Origin IGS: ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca .........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 tgaacagggccctgcccttgttatagcccactataactacccgctacgctttcgtagttgtgggtctaaggccagtcttggggaaccggcgggagtgactctctccctgcaccctccacccgatggcatctgcccccaggacccctgaccagagcgtgaccctctctctggactctccgcttagggagtttccctaagaaccctatgaaaagaaaaatcaataatcattaattcgtttttactatgacacaa Mask Tandem Repeat Region ================================================ ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Find is-nt database================================================ Query_seq: PI2073:PI2074|PI2073:PI2074:mobilization protein:conserved hypothetical protein:->->:2033548..2033799 252 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2073:PI2074|PI2073:PI2074:mobilization protein:conserved hypothetical protein:->->:2033548..2033799 252 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2073:PI2074|PI2073:PI2074:mobilization protein:conserved hypothetical protein:->->:2033548..2033799 252 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Predict ORF larger than 30AA ================================================ Protein_Len: 51 Strand: + Start: 32 End: 184 ............................... M I F L F I G F L G K L P K R R V Q R E G H A L V R G P G G R C H R V E G A G R E S L P P V P Q D W P .................................................................... Protein_Len: 31 Strand: + Start: 114 End: 206 ................................................................................................................. M G A D A I G W R V Q G E S H S R R F P K T G L R P T T T K A .............................................. Protein_Len: 30 Strand: + Start: 124 End: 213 ........................................................................................................................... M P S G G G C R E R V T P A G S P R L A L D P Q L R K R S G ....................................... Protein_Len: 41 Strand: - Start: 108 End: 230 ........................................................................................................... P D Q P C I G D P P P H L S L T V G A P E G L S A K S G C S R F R L P Y N Y H A M ...................... ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca 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================================================ ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2073:PI2074|PI2073:PI2074:mobilization protein:conserved hypothetical protein:->->:2033548..2033799 252 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Intra-Species Hit: Count: 1 Min: 1 Max: 252 Len: 252 Subject: pint_PI2073_PI2074|mobilization protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2033548,2033799]|252 HSP 1 e-value: 1.0E-140 bit: 500.0 Len: 252 Query Start:1 Query End:252 Subject Strand: POSITIVE Subject Start: 1 Subject End: 252 ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca ttgtgtcatagtaaaaacgaattaatgattattgatttttcttttcatagggttcttagggaaactccctaagcggagagtccagagagagggtcacgctctggtcaggggtcctgggggcagatgccatcgggtggagggtgcagggagagagtcactcccgccggttccccaagactggccttagacccacaactacgaaagcgtagcgggtagttatagtgggctataacaagggcagggccctgttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUGUCAUAGUAAAAACGAAUUAAUGAUUAUUGAUUUUUCUUUUCAUAGGGUUCUUAGGGAAACUCCCUAAGCGGAGAGUCCAGAGAGAGGGUCACGCUCUGGUCAGGGGUCCUGGGGGCAGAUGCCAUCGGGUGGAGGGUGCAGGGAGAGAGUCACUCCCGCCGGUUCCCCAAGACUGGCCUUAGACCCACAACUACGAAAGCGUAGCGGGUAGUUAUAGUGGGCUAUAACAAGGGCAGGGCCCUGUUCA ....((((((((........))).)))))....((((((((...((....))..(((((((.....))))))).))))))))..(((..((((((..(((((((((((....((((..(((....)))..))))(((.(((.((.(((((.......)))))))....))))))...))))))....((((....(((((....))))).)))).(((((((....))))))).)))))..)))))).))). (-85.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACAGGGCCCUGCCCUUGUUAUAGCCCACUAUAACUACCCGCUACGCUUUCGUAGUUGUGGGUCUAAGGCCAGUCUUGGGGAACCGGCGGGAGUGACUCUCUCCCUGCACCCUCCACCCGAUGGCAUCUGCCCCCAGGACCCCUGACCAGAGCGUGACCCUCUCUCUGGACUCUCCGCUUAGGGAGUUUCCCUAAGAACCCUAUGAAAAGAAAAAUCAAUAAUCAUUAAUUCGUUUUUACUAUGACACAA ....(((((....(((...(((((((....))))))).((((((((((....))))))...))))....)))..(((((((((.....(((((((.......))))).)).....(((.....))).......)))))))))))))).((((((.(.......).))))))........(((((((.....)))))))............((((((((.(((........))).)))))).))......... (-75.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 450 135 91 169 102 pint:PI0209|5end_hypothetical_protein_202723..202953_POSITIVE 443 166 121 69 16 pint:PI1568|5end_OmpA_family_protein_1489584..1489814_POSITIVE 421 159 111 92 40 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 417 147 105 69 22 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 403 150 102 197 151 pint:PI0214|5end_hypothetical_protein_208478..208708_POSITIVE 402 129 84 50 1 pint:PI0843|5end_carboxyl-terminal_protease_776145..776375_POSITIVE 401 250 208 229 177 pint:PI0753|5end_hypothetical_protein_683391..683621_POSITIVE 397 139 94 222 163 pint:PI0857|5end_hypothetical_protein_790697..790927_POSITIVE 397 150 103 62 5 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 395 200 151 157 100 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 394 240 191 101 55 pint:PI0168|5end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_161181..161411_POSITIVE 390 148 101 221 173 pint:PI0672|5end_conserved_hypothetical_protein_611746..611976_POSITIVE 381 130 81 223 179 pint:PI1327|5end_conserved_hypothetical_protein_1245563..1245793_POSITIVE 375 178 131 108 49 pint:PI0787|5end_glycosyltransferase_724136..724366_POSITIVE 375 137 93 72 27 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 373 170 126 207 160 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 370 170 126 140 94 pint:PI1205|5end_hypothetical_protein_1127047..1127277_POSITIVE 370 170 126 70 24 pint:PI1207|5end_hypothtical_protein_1126977..1127207_POSITIVE 369 150 105 226 179 pint:PI1508|5end_undecaprenol_kinase_1427288..1427518_POSITIVE 367 131 91 200 161 pint:PI2134|5end_hypothetical_protein_2082269..2082499_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 503 140 93 77 35 pint:PI1475|3end_possible_short_chain_dehydrogenase_1397905..1398055_POSITIVE 418 140 91 59 11 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 403 150 102 148 102 pint:PI0213|3end_conserved_hypothetical_protein_208509..208659_POSITIVE 396 140 91 148 94 pint:PI0208|3end_possible_peptidase,_M23/M37_family_202795..202945_POSITIVE 394 240 191 98 52 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 389 149 102 143 92 pint:PI0904|3end_conserved_hypothetical_protein_834295..834445_POSITIVE 387 148 106 63 12 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 385 150 106 96 46 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 384 125 84 105 59 pint:PI0891|3end_transketolase_822905..823055_POSITIVE 376 147 107 100 48 pint:PI1408|3end_glucose-1-phosphate_thymidylyltransferase_1329761..1329911_POSITIVE 375 137 93 81 36 pint:PI0300|3end_transposase_285761..285911_POSITIVE 370 170 126 145 99 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 367 150 102 148 92 pint:PI0224|3end_conserved_hypothetical_protein_221979..222129_POSITIVE 361 250 204 56 4 pint:PI0045|3end_thiamine_biosynthesis_protein_45425..45575_POSITIVE 360 148 103 53 11 pint:PI0540|3end_conserved_hypothetical_protein_493865..494015_POSITIVE 356 127 81 139 101 pint:PI1572|3end_hypothetical_protein_1498215..1498365_POSITIVE 356 149 103 111 43 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 356 147 102 87 25 pint:PI0421|3end_hypothetical_protein_387774..387924_POSITIVE 354 140 96 146 103 pint:PI0914|3end_ATPase,_AAA_family_844992..845142_POSITIVE 353 154 115 112 47 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE