Origin IGS: tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcccgaactgcaccattacgcacttgccgacaacgttgtgactttctcttctacccgccacggcggtgttagccaaggcaattacgcttcgttcaacatcaatcgcta Mask Tandem Repeat Region ================================================ tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Find is-nt database================================================ Query_seq: PI0539:PI0541|PI0539:PI0541:hypothetical protein:GTP-binding protein, GTP1/OBG family:->->:493789..493899 111 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0539:PI0541|PI0539:PI0541:hypothetical protein:GTP-binding protein, GTP1/OBG family:->->:493789..493899 111 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0539:PI0541|PI0539:PI0541:hypothetical protein:GTP-binding protein, GTP1/OBG family:->->:493789..493899 111 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 6 End: 110 ..... M D V E R S V I A L A N T A V A G R R E S H N V V G K C V M V Q F G L . Protein_Len: 33 Strand: - Start: 3 End: 101 .. R N I N F S A Y N G Q S V G G H R T S S F T V V N D A L A Y H H M .......... tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta 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================================================ tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0539:PI0541|PI0539:PI0541:hypothetical protein:GTP-binding protein, GTP1/OBG family:->->:493789..493899 111 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: pint_PI0539_PI0541|hypothetical protein:GTP-binding protein, GTP1/OBG family|POSITIVE:POSITIVE|[493789,493899]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta tagcgattgatgttgaacgaagcgtaattgccttggctaacaccgccgtggcgggtagaagagaaagtcacaacgttgtcggcaagtgcgtaatggtgcagttcgggctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCGAUUGAUGUUGAACGAAGCGUAAUUGCCUUGGCUAACACCGCCGUGGCGGGUAGAAGAGAAAGUCACAACGUUGUCGGCAAGUGCGUAAUGGUGCAGUUCGGGCUUA ..((((((.(((((......)))))))))))(((..(((...((((....)))).)))..)))..............(((.(.((.((((......)))).))).)))... (-29.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCCCGAACUGCACCAUUACGCACUUGCCGACAACGUUGUGACUUUCUCUUCUACCCGCCACGGCGGUGUUAGCCAAGGCAAUUACGCUUCGUUCAACAUCAAUCGCUA .......((((.((........((.(((((..(((.(((((((..................))))))).)))..).))))))......))...)))).............. (-22.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 448 90 44 192 138 pint:PI0080|5end_hypothetical_protein_79047..79277_POSITIVE 372 89 42 65 15 pint:PI1007|5end_conserved_hypothetical_protein_926956..927186_POSITIVE 367 52 11 68 18 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 360 49 4 181 124 pint:PI1443|5end_conserved_hypotehtical_protein;_possible_tonB-dependent_outer_membrane_receptor_1364560..1364790_POSITIVE 356 110 66 49 7 pint:PI2015|5end_D-alanine--D-alanine_ligase_1972724..1972954_POSITIVE 356 56 19 158 120 pint:PI0435|5end_30S_ribosomal_protein_S21_406997..407227_POSITIVE 350 57 19 164 121 pint:PI0094|5end_protoporphyrinogen_oxidase_89571..89801_POSITIVE 350 57 19 90 47 pint:PI0091|5end_hypothetical_protein_89497..89727_POSITIVE 347 90 44 207 163 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 344 82 43 81 47 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 341 57 21 213 184 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 339 59 11 71 23 pint:PI0714|5end_conserved_hypothetical_protein_651345..651575_POSITIVE 338 100 57 150 107 pint:PI1755|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1681930..1682160_POSITIVE 335 74 34 230 187 pint:PI0582|5end_hypothetical_protein_524853..525083_POSITIVE 334 48 2 53 8 pint:PI0586|5end_hypothetical_protein_533757..533987_POSITIVE 333 108 67 65 15 pint:PI0014|5end_hypothetical_protein_17256..17486_POSITIVE 332 62 27 39 6 pint:PI1937|5end_hypothetical_protein_1889411..1889641_POSITIVE 332 55 14 49 1 pint:PI1200|5end_carbon-nitrogen_hydrolase/beta-alanine_synthase_1115662..1115892_POSITIVE 331 50 4 69 13 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 331 65 21 198 155 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 89 42 78 28 pint:PI1006|3end_conserved_hypothetical_protein_927049..927199_POSITIVE 351 57 11 103 45 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 344 109 63 89 33 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 341 55 13 53 4 pint:PI1199|3end_possible_acetyltransferase_1115746..1115896_POSITIVE 338 100 57 150 107 pint:PI1754|3end_conserved_hypothetical_protein_1682010..1682160_POSITIVE 334 64 21 81 36 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 332 62 27 36 3 pint:PI1936|3end_conserved_hypothetical_protein;_possible_serine-type_protease_1889488..1889638_POSITIVE 331 65 21 127 84 pint:PI1203|3end_conserved_hypothetical_protein_1124439..1124589_POSITIVE 329 110 74 40 5 pint:PI0705|3end_conserved_hypothetical_protein;_possible_lipoprotein_642271..642421_POSITIVE 323 100 51 67 20 pint:PI0594|3end_possible_rare_lipoprotein_A_545157..545307_POSITIVE 322 70 22 138 81 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 319 105 64 130 74 pint:PI2098|3end_hypothetical_protein_2052473..2052623_POSITIVE 318 63 21 66 22 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 315 89 43 104 37 pint:PI0539|3end_hypothetical_protein_493728..493878_POSITIVE 314 90 43 77 17 pint:PI1270|3end_probable_dipeptidyl_peptidase_1190829..1190979_POSITIVE 313 90 41 140 82 pint:PI0736|3end_transcriptional_regulator,_TetR_family_671271..671421_POSITIVE 312 89 45 86 45 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 311 108 64 144 90 pint:PI1602|3end_conserved_hypothetical_protein;_possible_internalin-related_protein_1533819..1533969_POSITIVE 308 48 3 67 23 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 307 54 11 55 19 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE