Origin IGS: ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggtctaccttttttgctaaaagggtctaccttttcttcttcggcttagttctctgtgagaatgccacgaacgcagttagtcatagaatgcacggaattcatttttaggctataaaacgttttaagcgtaaataatttgttcggtagcattgcaagacgtcagtttgtacccacaaactgctcttgctcccctcgttcgattgtcggggagataagaccgtaatcactccgttctcatcggtcagtattcaggaattaagaaacaatgaatcatctacaatgataaactttcaaggaaacttat Mask Tandem Repeat Region ================================================ ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Find is-nt database================================================ Query_seq: PI1543:PI1544|PI1543:PI1544:hypothetical protein:hypothetical protein:->->:1463342..1463646 305 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1543:PI1544|PI1543:PI1544:hypothetical protein:hypothetical protein:->->:1463342..1463646 305 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1543:PI1544|PI1543:PI1544:hypothetical protein:hypothetical protein:->->:1463342..1463646 305 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 57 End: 197 ........................................................ M L T D E N G V I T V L S P R Q S N E G S K S S L W V Q T D V L Q C Y R T N Y L R L K R F I A ............................................................................................................ Protein_Len: 34 Strand: + Start: 155 End: 256 .......................................................................................................................................................... M L P N K L F T L K T F Y S L K M N S V H S M T N C V R G I L T E N ................................................. Protein_Len: 42 Strand: - Start: 2 End: 127 . L N G Q F N I M T S S E N N R L E Q I S V S S F P T I V T K D G R C D F S P L L L M .................................................................................................................................................................................. ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta 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================================================ ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 46 HP_score: -2.9 Tail_Score: -3.42699 Start: 74 End: 100 Full_Region: ccctcgttcgattgt cggggagataa gaccg taatcactccg ttctcatcggtcagt .........................................................................cggggagataagaccgtaatcactccg............................................................................................................................................................................................................. Find igs database================================================ Query_seq: PI1543:PI1544|PI1543:PI1544:hypothetical protein:hypothetical protein:->->:1463342..1463646 305 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Intra-Species Hit: Count: 2 Min: 1 Max: 305 Len: 305 Subject: pint_PI1543_PI1544|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1463342,1463646]|305 HSP 1 e-value: 1.0E-172 bit: 605.0 Len: 305 Query Start:1 Query End:305 Subject Strand: POSITIVE Subject Start: 1 Subject End: 305 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacccttttagcaaaaaaggtagaccta Subject: pint_PI0745_PI0746|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[675731,676110]|380 HSP 1 e-value: 2.0E-31 bit: 137.0 Len: 121 Query Start:42 Query End:162 Subject Strand: NEGATIVE Subject Start: 180 Subject End: 299 .........................................tttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaagagcagtttgtgggtacaaactgacgtcttgcaatgctacc............................................................................................................................................... .........................................tttcttaatttctgatggctgaccgatgagaacggagtgattacggtctaacctccc-gataattaaacgaggagagcaagcgcagtttgtgggtacaaactgacgtcttgcaatgctacc............................................................................................................................................... Inter-species Hit: Count: 1 Min: 1 Max: 281 Len: 281 Subject: tfor_TF1631_TF1632|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1743594,1743999]|406 HSP 1 e-value: 1.0E-118 bit: 424.0 Len: 281 Query Start:1 Query End:281 Subject Strand: POSITIVE Subject Start: 66 Subject End: 347 ataagtttccttgaaagtttatcattgtagatgattcattgtttcttaattcctgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatcgaacgaggggagcaaga-gcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatttacgcttaaaacgttttatagcctaaaaatgaattccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagccgaagaagaaaaggtagacc........................ ataagcttctttgaaagttaatcattatagatgattcattgtctcttaattcttgaatactgaccgatgagaacggagtgattacggtcttatctccccgacaatctaacgaggggagctgggcgcagtttgtgggtacaaactgacgtcttgcaatgctaccgaacaaattatatacgcttaaaacgttttatagcctaaaaacgaatgccgtgcattctatgactaactgcgttcgtggcattctcacagagaactaagctgaagaaaaaaaggtagacc........................ Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAGUUUCCUUGAAAGUUUAUCAUUGUAGAUGAUUCAUUGUUUCUUAAUUCCUGAAUACUGACCGAUGAGAACGGAGUGAUUACGGUCUUAUCUCCCCGACAAUCGAACGAGGGGAGCAAGAGCAGUUUGUGGGUACAAACUGACGUCUUGCAAUGCUACCGAACAAAUUAUUUACGCUUAAAACGUUUUAUAGCCUAAAAAUGAAUUCCGUGCAUUCUAUGACUAACUGCGUUCGUGGCAUUCUCACAGAGAACUAAGCCGAAGAAGAAAAGGUAGACC ....((((((((...((((..((((....((((.(((((((..((...(((....)))...)).))))))).(((((((.....((((......(((((.............)))))(((((((((((((((....)))))))).).))))))......)))).........((((.(((((((....)))).))).)))).....))))))).))))..))))..))))...(((.((((.(((((...)))))....))))..)))...)))).)))). (-65.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUCUACCUUUUCUUCUUCGGCUUAGUUCUCUGUGAGAAUGCCACGAACGCAGUUAGUCAUAGAAUGCACGGAAUUCAUUUUUAGGCUAUAAAACGUUUUAAGCGUAAAUAAUUUGUUCGGUAGCAUUGCAAGACGUCAGUUUGUACCCACAAACUGCUCUUGCUCCCCUCGUUCGAUUGUCGGGGAGAUAAGACCGUAAUCACUCCGUUCUCAUCGGUCAGUAUUCAGGAAUUAAGAAACAAUGAAUCAUCUACAAUGAUAAACUUUCAAGGAAACUUAU (((((....(((((((...(((...((((((...))))))))).((((((.((..........(((((((.((((..(((((((.(((.((((....))))))).)))).)))..)))).)).)))))((((((.(.((((((((....)))))))))))))))....))))))))......)))))))..)))))...((((..(((.......)))...(.(((((...............))))))........))))........(((....))).. (-71.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 737 98 53 229 184 pint:PI0746|5end_hypothetical_protein_675971..676201_POSITIVE 367 147 104 126 73 pint:PI0300|5end_transposase_285163..285393_POSITIVE 350 115 73 91 30 pint:PI0223|5end_topoisomerase_IA_218377..218607_POSITIVE 335 280 236 83 33 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 332 162 121 115 70 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 318 163 122 199 151 pint:PI1660|5end_hypothetical_protein_1574659..1574889_POSITIVE 317 135 97 117 71 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 316 124 85 41 4 pint:PI1598|5end_phosphate_ABC_transporter,_phosphate-binding_component_1526646..1526876_POSITIVE 315 135 96 206 163 pint:PI1543|5end_hypothetical_protein_1462773..1463003_POSITIVE 312 150 101 104 56 pint:PI0168|5end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_161181..161411_POSITIVE 311 248 204 191 142 pint:PI0442|5end_50S_ribosomal_protein_L1_411644..411874_POSITIVE 308 150 104 184 136 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 305 128 84 82 32 pint:PI1393|5end_aldose_1-epimerase_1312790..1313020_POSITIVE 305 120 71 139 70 pint:PI0566|5end_enoyl-[acyl-carrier-protein]_reductase_511832..512062_POSITIVE 304 149 102 109 67 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 304 119 74 218 175 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 303 170 124 179 134 pint:PI1562|5end_methyltransferase_1479644..1479874_POSITIVE 301 149 109 225 194 pint:PI1303|5end_ISPg3-related_transposase_1215135..1215365_POSITIVE 300 127 99 87 58 pint:PI0918|5end_Fe-S_oxidoreductase,_family_2_847078..847308_POSITIVE 297 237 191 82 29 pint:PI1633|5end_hypothetical_protein_1552504..1552734_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 115 73 76 15 pint:PI0222|3end_conserved_hypothetical_protein_218442..218592_POSITIVE 324 160 111 145 93 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 321 136 105 151 117 pint:PI1566|3end_predicted_TPR-repeat-containing_protein_1489224..1489374_POSITIVE 317 270 221 150 91 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 317 135 97 117 71 pint:PI0279|3end_hypothetical_protein_266081..266231_POSITIVE 312 150 101 101 53 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 308 137 94 142 96 pint:PI0914|3end_ATPase,_AAA_family_844992..845142_POSITIVE 303 164 123 107 75 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 289 118 71 87 24 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 289 280 235 78 38 pint:PI0007|3end_hypothetical_protein_7300..7450_POSITIVE 286 140 91 69 10 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 286 124 93 28 6 pint:PI1597|3end_tonB_protein_1526713..1526863_POSITIVE 286 120 73 146 113 pint:PI1236|3end_10_kDa_chaperonin,_cpn10,_GroES_1159280..1159430_POSITIVE 285 268 222 132 86 pint:PI0608|3end_isochorismate_synthase_556580..556730_POSITIVE 284 133 96 36 5 pint:PI1810|3end_outer_membrane_protein_1749566..1749716_POSITIVE 282 129 85 60 9 pint:PI0399|3end_conserved_hypothetical_protein_364090..364240_POSITIVE 281 276 231 80 31 pint:PI1284|3end_ATP_synthase,_delta_subunit_1200323..1200473_POSITIVE 281 147 106 143 102 pint:PI0005|3end_hypothetical_protein_7450..7600_POSITIVE 280 150 106 104 50 pint:PI1789|3end_hypothetical_protein_1719037..1719187_POSITIVE 280 276 231 55 3 pint:PI1628|3end_hypothetical_protein_1551782..1551932_POSITIVE