Origin IGS: tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta .........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 taaagaagattttgcagctaaataaggcagtaaaacactgcttattataacacaacaaatccgttagtcaagttaaaaactttgtgttttacttgtgctaacggatttttttgtctacttttgcaagcgtaaaaccaatattttaatttataatggacgattacctttcgaatattttaaacgaataacgtgaggatagcagcctgatagatgctaatccccaccataactaaactaattggagattagcaaa Mask Tandem Repeat Region ================================================ tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Find is-nt database================================================ Query_seq: PI1681:PI1682|PI1681:PI1682:Mg2+/Co2+ transporter:aminoacyl-histidine dipeptidase:->->:1598190..1598442 253 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1681:PI1682|PI1681:PI1682:Mg2+/Co2+ transporter:aminoacyl-histidine dipeptidase:->->:1598190..1598442 253 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1681:PI1682|PI1681:PI1682:Mg2+/Co2+ transporter:aminoacyl-histidine dipeptidase:->->:1598190..1598442 253 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 81 End: 206 ................................................................................ M R K V I V H Y K L K Y W F Y A C K S R Q K N P L A Q V K H K V F N L T N G F V V L ............................................... Protein_Len: 32 Strand: - Start: 64 End: 159 ............................................................... T I R K F Y E F P L R G N Y I L I N T K R K C F Y V F F D T L M .............................................................................................. tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta 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================================================ tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 88 HP_score: -8.5 Tail_Score: -4.49353 Start: 149 End: 194 Full_Region: AAGTAGACAAAAAAA TCCGTTAGCACAAGTAAAACAC AAA GTTTTTAACTTGACTAACGGA TTTGTTGTGTTATAA ....................................................................................................................................................TCCGTTAGCACAAGTAAAACACAAAGTTTTTAACTTGACTAACGGA........................................................... TransTerm Strand: - Conf: 100 HP_score: -10.7 Tail_Score: -5.75478 Start: 149 End: 194 Full_Region: ttataacacaacaaa tccgttagtcaagttaaaaac ttt gtgttttacttgtgctaacgga tttttttgtctactt ....................................................................................................................................................tccgttagtcaagttaaaaactttgtgttttacttgtgctaacgga........................................................... Find igs database================================================ Query_seq: PI1681:PI1682|PI1681:PI1682:Mg2+/Co2+ transporter:aminoacyl-histidine dipeptidase:->->:1598190..1598442 253 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Intra-Species Hit: Count: 1 Min: 1 Max: 253 Len: 253 Subject: pint_PI1681_PI1682|Mg2+/Co2+ transporter:aminoacyl-histidine dipeptidase|POSITIVE:POSITIVE|[1598190,1598442]|253 HSP 1 e-value: 1.0E-128 bit: 460.0 Len: 253 Query Start:1 Query End:253 Subject Strand: POSITIVE Subject Start: 1 Subject End: 253 tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacnnnnnnntccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta tttgctaatctccaattagtttagttatggtggggattagcatctatcaggctgctatcctcacgttattcgtttaaaatattcgaaaggtaatcgtccattataaattaaaatattggttttacgcttgcaaaagtagacaaaaaaatccgttagcacaagtaaaacacaaagtttttaacttgactaacggatttgttgtgttataataagcagtgttttactgccttatttagctgcaaaatcttcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGCUAAUCUCCAAUUAGUUUAGUUAUGGUGGGGAUUAGCAUCUAUCAGGCUGCUAUCCUCACGUUAUUCGUUUAAAAUAUUCGAAAGGUAAUCGUCCAUUAUAAAUUAAAAUAUUGGUUUUACGCUUGCAAAAGUAGACAAAAAAAUCCGUUAGCACAAGUAAAACACAAAGUUUUUAACUUGACUAACGGAUUUGUUGUGUUAUAAUAAGCAGUGUUUUACUGCCUUAUUUAGCUGCAAAAUCUUCUUUA ...(((((...(((((...(((((((...((((((((.((((.((....)).))))))))))))....((((..((...))..)))).((.......))......)))))))..)))))..))).)).....((((.(((.....(((((((((((..((((((((((.....)))))..))))).))))))))))).((((((((.(((((((((((...))))).)))))))))).))))..))).)))). (-65.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAAGAUUUUGCAGCUAAAUAAGGCAGUAAAACACUGCUUAUUAUAACACAACAAAUCCGUUAGUCAAGUUAAAAACUUUGUGUUUUACUUGUGCUAACGGAUUUUUUUGUCUACUUUUGCAAGCGUAAAACCAAUAUUUUAAUUUAUAAUGGACGAUUACCUUUCGAAUAUUUUAAACGAAUAACGUGAGGAUAGCAGCCUGAUAGAUGCUAAUCCCCACCAUAACUAAACUAAUUGGAGAUUAGCAAA ........(((..((.((((....(((((((.....))))))).......(((...(((((((((((((((((..(((((.....)))))))))).)))))))))))).(((((.((..((((.(((.((((..(((.(((........))).)))....))))))).)))).....)).)))))....)))....)))).))..)))...((((((((.(((................))).)))))))).. (-60.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 64 27 64 24 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 321 56 11 136 80 pint:PI2076|5end_hypothetical_protein_2035403..2035633_POSITIVE 302 73 31 220 173 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 297 229 181 57 7 pint:PI1127|5end_chloride_channel_protein_1052612..1052842_POSITIVE 283 67 21 53 4 pint:PI0262|5end_conserved_hypothetical_protein_254685..254915_POSITIVE 280 42 1 77 36 pint:PI2133|5end_collagenase_2081106..2081336_POSITIVE 278 75 31 220 167 pint:PI0246|5end_conserved_hypothetical_protein_244166..244396_POSITIVE 274 60 12 108 58 pint:PI1530|5end_conserved_hypothetical_protein_1450439..1450669_POSITIVE 272 67 27 226 189 pint:PI0399|5end_conserved_hypothetical_protein_363585..363815_POSITIVE 270 59 13 89 38 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 268 65 30 149 109 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 268 230 191 166 133 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 264 67 36 188 161 pint:PI1635|5end_hypothetical_protein_1553948..1554178_POSITIVE 264 73 38 105 63 pint:PI0358|5end_hypothetical_protein_327561..327791_POSITIVE 263 68 27 150 114 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 262 164 121 214 165 pint:PI1638|5end_conserved_hypothetical_protein_1555337..1555567_POSITIVE 260 69 27 115 78 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 257 57 12 219 169 pint:PI1605|5end_conserved_hypothetical_protein_1534244..1534474_POSITIVE 257 74 40 80 45 pint:PI0064|5end_hypothetical_protein_63622..63852_POSITIVE 255 60 19 158 110 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 64 28 40 1 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 309 42 3 88 49 pint:PI1681|3end_Mg2+/Co2+_transporter_1598129..1598279_POSITIVE 283 67 21 53 4 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 278 63 22 54 11 pint:PI0862|3end_polysaccharide_export_outer_membrane_protein_799122..799272_POSITIVE 276 45 9 84 48 pint:PI0384|3end_probable_radical_SAM_domain_protein_353821..353971_POSITIVE 272 67 27 102 65 pint:PI0398|3end_hypothetical_protein_363541..363691_POSITIVE 270 66 23 101 37 pint:PI0798|3end_malonyl_CoA-acyl_carrier_protein_transacylase_736975..737125_POSITIVE 262 164 121 81 32 pint:PI1637|3end_hypothetical_protein_1555284..1555434_POSITIVE 259 56 11 118 79 pint:PI0262|3end_conserved_hypothetical_protein_255094..255244_POSITIVE 258 74 32 46 5 pint:PI0138|3end_hypothetical_protein_131365..131515_POSITIVE 257 57 12 90 40 pint:PI1604|3end_hypothetical_protein_1534195..1534345_POSITIVE 251 61 24 81 46 pint:PI0891|3end_transketolase_822905..823055_POSITIVE 249 67 25 120 68 pint:PI1402|3end_3-deoxy-7-phosphoheptulonate_synthase_1323980..1324130_POSITIVE 249 240 191 109 52 pint:PI0258|3end_conjugative_transposon_protein,_TraG_252285..252435_POSITIVE 248 55 22 150 110 pint:PI1763|3end_two-component_system_sensor_histidine_kinase/response_regulator_1688602..1688752_POSITIVE 246 74 31 78 30 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 242 60 11 133 84 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 242 55 15 78 42 pint:PI0197|3end_acetate_kinase_189827..189977_POSITIVE 239 54 27 118 91 pint:PI1296|3end_glycosyltransferase_1209889..1210039_POSITIVE 239 160 118 76 21 pint:PI0648|3end_hypothetical_protein_589731..589881_POSITIVE