Origin IGS: taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt .........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 aatctatcgtttttaattttgttactaatattgttcgatagctaacgtgcaaaacttgtgccacggcatttttagcatatacttttgataacatttgtacattgtaacataactgacacaccgacaaagggcacatttgttaccatcttttgtccttcacaaacacatattagtaaactta Mask Tandem Repeat Region ================================================ taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Find is-nt database================================================ Query_seq: PI1003:PI1004|PI1003:PI1004:conserved hypothetical protein:conserved hypothetical protein:->->:925779..925959 181 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1003:PI1004|PI1003:PI1004:conserved hypothetical protein:conserved hypothetical protein:->->:925779..925959 181 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1003:PI1004|PI1003:PI1004:conserved hypothetical protein:conserved hypothetical protein:->->:925779..925959 181 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 12 End: 107 ........... M C V C E G Q K M V T N V P F V G V S V M L Q C T N V I K S I C .......................................................................... Protein_Len: 45 Strand: + Start: 46 End: 180 ............................................. M C P L S V C Q L C Y N V Q M L S K V Y A K N A V A Q V L H V S Y R T I L V T K L K T I D . Protein_Len: 34 Strand: - Start: 2 End: 103 . L K S I H T Q S P C F I T V F T G K T P T D T I N C H V F T I L L M .............................................................................. taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt 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================================================ PromScan Matrix: RpoN Strand: + Score: 92 Start: 118 End: 134 .....................................................................................................................GTGGCACAAGTTTTGCA............................................... taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1003:PI1004|PI1003:PI1004:conserved hypothetical protein:conserved hypothetical protein:->->:925779..925959 181 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Intra-Species Hit: Count: 1 Min: 1 Max: 181 Len: 181 Subject: pint_PI1003_PI1004|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[925779,925959]|181 HSP 1 e-value: 2.0E-98 bit: 359.0 Len: 181 Query Start:1 Query End:181 Subject Strand: POSITIVE Subject Start: 1 Subject End: 181 taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt taagtttactaatatgtgtttgtgaaggacaaaagatggtaacaaatgtgccctttgtcggtgtgtcagttatgttacaatgtacaaatgttatcaaaagtatatgctaaaaatgccgtggcacaagttttgcacgttagctatcgaacaatattagtaacaaaattaaaaacgatagatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUUUACUAAUAUGUGUUUGUGAAGGACAAAAGAUGGUAACAAAUGUGCCCUUUGUCGGUGUGUCAGUUAUGUUACAAUGUACAAAUGUUAUCAAAAGUAUAUGCUAAAAAUGCCGUGGCACAAGUUUUGCACGUUAGCUAUCGAACAAUAUUAGUAACAAAAUUAAAAACGAUAGAUU ...(((.((((((((.((((((.....(((......((((((((..(((((...((((.((..((.....))..)))))).)))))..))))))))........(((.((((.(((....)))....))))))).)))......))))))))))))))))).................... (-38.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCUAUCGUUUUUAAUUUUGUUACUAAUAUUGUUCGAUAGCUAACGUGCAAAACUUGUGCCACGGCAUUUUUAGCAUAUACUUUUGAUAACAUUUGUACAUUGUAACAUAACUGACACACCGACAAAGGGCACAUUUGUUACCAUCUUUUGUCCUUCACAAACACAUAUUAGUAAACUUA .....................((((((((((((((.(.........(((((((....((((....))))......((........))......)))))))......................(((((((((..............))))))))).....).)))).))))))))))..... (-28.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 159 114 174 128 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 311 160 114 55 20 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 307 147 102 65 15 pint:PI0139|5end_pyridoxine_biosynthesis_protein_131835..132065_POSITIVE 306 78 37 226 173 pint:PI1901|5end_hemolysin_A_1843932..1844162_POSITIVE 302 143 102 138 88 pint:PI1468|5end_conserved_hypothetical_protein;_probable_TPR_domain_protein_1393900..1394130_POSITIVE 295 70 21 118 75 pint:PI1797|5end_hypothetical_protein_1731147..1731377_POSITIVE 295 65 22 115 65 pint:PI0122|5end_outer_membrane_protein,_ompH_family_113319..113549_POSITIVE 284 58 11 176 118 pint:PI0563|5end_possible_integral_membrane_protein_510248..510478_POSITIVE 280 150 114 182 137 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 279 68 21 188 140 pint:PI0505|5end_mobilization_protein_464578..464808_POSITIVE 279 68 21 69 21 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 278 90 44 170 124 pint:PI1749|5end_conserved_hypothetical_protein_1671039..1671269_POSITIVE 278 68 22 194 152 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 276 147 104 93 48 pint:PI1711|5end_ABC_transporter,_ATP-binding_protein_1627597..1627827_POSITIVE 276 70 22 72 29 pint:PI0512|5end_conserved_hypothetical_protein_470785..471015_POSITIVE 270 158 114 183 145 pint:PI1562|5end_methyltransferase_1479644..1479874_POSITIVE 269 69 21 103 49 pint:PI0063|5end_transcriptional_regulator,_GntR_family_63181..63411_POSITIVE 266 66 30 225 193 pint:PI1818|5end_hypothetical_protein_1756891..1757121_POSITIVE 266 150 102 210 155 pint:PI1038|5end_hypothetical_protein_958685..958915_POSITIVE 264 76 35 208 170 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 143 102 67 17 pint:PI1467|3end_conserved_hypothetical_protein_1393909..1394059_POSITIVE 297 58 15 54 5 pint:PI2008|3end__ABC_transporter,_ATP-binding_protein_1967961..1968111_POSITIVE 294 70 21 99 45 pint:PI1567|3end_hypothetical_protein_1489521..1489671_POSITIVE 287 68 37 148 110 pint:PI1900|3end_conserved_hypothetical_protein_1843949..1844099_POSITIVE 286 68 21 98 45 pint:PI1347|3end_DNA_damage-inducible_protein_1262178..1262328_POSITIVE 280 145 114 115 87 pint:PI0353|3end_hypothetical_protein_325337..325487_POSITIVE 276 70 22 59 16 pint:PI0511|3end_hypothetical_protein_470852..471002_POSITIVE 263 66 34 53 16 pint:PI0562|3end_conserved_hypothetical_protein_510198..510348_POSITIVE 262 134 101 141 104 pint:PI1031|3end_hypothetical_protein_948507..948657_POSITIVE 260 64 21 78 40 pint:PI0747|3end_possible_mobilization_protein_676702..676852_POSITIVE 257 156 112 112 61 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 251 149 103 53 5 pint:PI0538|3end_transcriptional_regulator_492925..493075_POSITIVE 250 70 21 146 98 pint:PI0687|3end_hypothetical_protein_625652..625802_POSITIVE 250 68 21 103 54 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 248 71 39 99 68 pint:PI1265|3end_hypothetical_protein_1185512..1185662_POSITIVE 248 82 43 140 100 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 246 86 53 149 117 pint:PI0869|3end_possible_exodeoxyribonuclease_VII_(small_subunit)_805774..805924_POSITIVE 245 69 27 61 28 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 243 148 106 151 115 pint:PI1561|3end_conserved_hypothetical_protein;_possible_lipoprotein_1479702..1479852_POSITIVE 241 70 21 141 80 pint:PI1928|3end_conserved_hypothetical_protein_1873404..1873554_POSITIVE