Origin IGS: tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa .........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 ttgtcccctccaaaatgttattaaatattattttaccaaattttctgaaaatttcaaccaaaagtaataaatttaaagaattttttcacaattaagatagattattaaattttgttcacattagatttgcttattttctgttttctttgatttcaactttcttcacaaacttcactatgcccctgaagaaaacaaaaaagaccaggaaaatctccctgatcttaatttttcaga Mask Tandem Repeat Region ================================================ tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Find is-nt database================================================ Query_seq: SSA_0773:SSA_0774|SSA_0773:SSA_0774:PTS enzyme I, putative:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative:->->:754477..754710 234 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0773:SSA_0774|SSA_0773:SSA_0774:PTS enzyme I, putative:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative:->->:754477..754710 234 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0773:SSA_0774|SSA_0773:SSA_0774:PTS enzyme I, putative:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative:->->:754477..754710 234 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 9 End: 101 ........ M K I R E I F L V F F V F F R G I V K F V K K V E I K E N R K ..................................................................................................................................... Protein_Len: 36 Strand: - Start: 3 End: 110 .. S F N L D P L N E Q D K K N E E P A Y H L K H L F N F D F F V S F L C M ............................................................................................................................ Protein_Len: 38 Strand: - Start: 2 End: 115 . Q F I L I L S I K R T K K T K K L P M T F N T F F T S I L S F L F Y A F R M ....................................................................................................................... tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa 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================================================ tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0773:SSA_0774|SSA_0773:SSA_0774:PTS enzyme I, putative:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative:->->:754477..754710 234 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Intra-Species Hit: Count: 1 Min: 1 Max: 234 Len: 234 Subject: NC_009009_SSA_0773_SSA_0774|PTS enzyme I, putative:NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, putative|POSITIVE:POSITIVE|[754477,754710]|234 HSP 1 e-value: 1.0E-130 bit: 464.0 Len: 234 Query Start:1 Query End:234 Subject Strand: POSITIVE Subject Start: 1 Subject End: 234 tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa tctgaaaaattaagatcagggagattttcctggtcttttttgttttcttcaggggcatagtgaagtttgtgaagaaagttgaaatcaaagaaaacagaaaataagcaaatctaatgtgaacaaaatttaataatctatcttaattgtgaaaaaattctttaaatttattacttttggttgaaattttcagaaaatttggtaaaataatatttaataacattttggaggggacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGAAAAAUUAAGAUCAGGGAGAUUUUCCUGGUCUUUUUUGUUUUCUUCAGGGGCAUAGUGAAGUUUGUGAAGAAAGUUGAAAUCAAAGAAAACAGAAAAUAAGCAAAUCUAAUGUGAACAAAAUUUAAUAAUCUAUCUUAAUUGUGAAAAAAUUCUUUAAAUUUAUUACUUUUGGUUGAAAUUUUCAGAAAAUUUGGUAAAAUAAUAUUUAAUAACAUUUUGGAGGGGACAA ...........(((((((((((....)))))))))))..(((((..((((((((.(((((......)))))..(((((((..((((((((...................((......))...((((((((.......((........)).........)))))))).....))))))))..)))))))...............................))))))))..))))) (-42.29) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUCCCCUCCAAAAUGUUAUUAAAUAUUAUUUUACCAAAUUUUCUGAAAAUUUCAACCAAAAGUAAUAAAUUUAAAGAAUUUUUUCACAAUUAAGAUAGAUUAUUAAAUUUUGUUCACAUUAGAUUUGCUUAUUUUCUGUUUUCUUUGAUUUCAACUUUCUUCACAAACUUCACUAUGCCCCUGAAGAAAACAAAAAAGACCAGGAAAAUCUCCCUGAUCUUAAUUUUUCAGA .............((((((....))))))..............((((((((....(((..((((((((((((((((.(((....)))........((.(((((....)))))...))...))))))))).)))))))..)))...............((((((((....(........)....))))))))......((((.((((........)))).))))...)))))))) (-31.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 69 25 182 135 NC_009009:SSA_1131|5end_High-affinity_Fe_2+/Pb2+_permease,_putative_1157183..1157413_POSITIVE 276 51 13 114 70 NC_009009:SSA_0845|5end_ABC-type_multidrug_transport_system,_ATPase_component,_putative_830046..830276_NEGATIVE 271 60 18 93 54 NC_009009:SSA_1671|5end_hypothetical_protein_1669304..1669534_POSITIVE 270 58 14 91 50 NC_009009:SSA_0701|5end_Cation_transporter_CorA_family,_putative_684368..684598_POSITIVE 266 88 41 201 152 NC_009009:SSA_2322|5end_Transcriptional_regulator,_TetR/AcrR_family,_putative_2327044..2327274_POSITIVE 263 57 20 48 17 NC_009009:SSA_2132|5end_Ure_cluster_protein,_putative_2134170..2134400_POSITIVE 260 59 13 202 137 NC_009009:SSA_1317|5end_hypothetical_protein_1333544..1333774_NEGATIVE 260 58 17 72 22 NC_009009:SSA_0041|5end_hypothetical_protein_47662..47892_POSITIVE 258 57 13 160 119 NC_009009:SSA_0582|5end_Methylase,_putative_573769..573999_POSITIVE 256 70 25 205 145 NC_009009:SSA_1521|5end_Phosphoenolpyruvate_carboxylase,_putative_1530683..1530913_NEGATIVE 256 52 18 49 10 NC_009009:SSA_0566|5end_GTP-sensing_transcriptional_pleiotropic_repressor,_putative_560017..560247_POSITIVE 254 60 18 163 115 NC_009009:SSA_0884|5end_hypothetical_protein_879063..879293_NEGATIVE 244 86 47 64 20 NC_009009:SSA_0602|5end_ABC-type_cobalt_transport_system,_ATPase_component,_putative_589918..590148_POSITIVE 243 55 18 67 24 NC_009009:SSA_0604|5end_hypothetical_protein_592451..592681_POSITIVE 243 56 24 228 196 NC_009009:SSA_0526|5end_hypothetical_protein_523960..524190_POSITIVE 242 56 11 50 2 NC_009009:SSA_0609|5end_Transcriptional_regulator,_TetR/AcrR_family,_putative_598864..599094_NEGATIVE 242 78 33 175 137 NC_009009:SSA_0574|5end_YdjX_protein,_putative_569427..569657_NEGATIVE 240 57 15 211 175 NC_009009:SSA_0490|5end_Cobalamin_5'-phosphate_synthase,_putative_490236..490466_POSITIVE 236 70 21 158 94 NC_009009:SSA_1831|5end_hypothetical_protein_1821138..1821368_POSITIVE 235 75 35 72 22 NC_009009:SSA_2277|5end_DNA_segregation_ATPase_FtsK/SpoIIIE_family_protein,_putative_2280407..2280637_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 52 12 89 54 NC_009009:SSA_0773|3end_PTS_enzyme_I,_putative_754416..754566_POSITIVE 341 54 11 114 61 NC_009009:SSA_0597|3end_hypothetical_protein_588563..588713_POSITIVE 322 57 23 113 78 NC_009009:SSA_1625|3end_Lactoylglutathione_lyase,_putative_1626577..1626727_NEGATIVE 276 75 37 146 107 NC_009009:SSA_0384|3end_hypothetical_protein_378449..378599_POSITIVE 267 56 11 125 74 NC_009009:SSA_1985|3end_hypothetical_protein_1979623..1979773_NEGATIVE 264 70 23 150 109 NC_009009:SSA_1128|3end_Voltage_gated_chloride_channel_EriC,_putative_1154886..1155036_POSITIVE 263 57 20 45 14 NC_009009:SSA_2131|3end_DNA-binding_protein,_putative_2134247..2134397_POSITIVE 260 52 12 108 63 NC_009009:SSA_0027|3end_Acyl_carrier_protein,_putative_31802..31952_POSITIVE 258 57 13 85 44 NC_009009:SSA_0581|3end_Conserved_uncharacterized_protein_573774..573924_POSITIVE 246 59 12 114 60 NC_009009:SSA_1664|3end_Phosphatidylethanolamine_N-methyltransferase,_putative_1664449..1664599_NEGATIVE 245 70 21 84 36 NC_009009:SSA_1318|3end_GTP-binding_protein_lepA,_putative_1333989..1334139_NEGATIVE 245 60 18 150 103 NC_009009:SSA_1102|3end_hypothetical_protein_1123807..1123957_POSITIVE 244 70 30 125 81 NC_009009:SSA_1158|3end_hypothetical_protein_1187187..1187337_POSITIVE 244 86 47 54 10 NC_009009:SSA_0601|3end_Phosphorylase,_Pnp/Udp_family,_putative_589988..590138_POSITIVE 243 55 18 48 5 NC_009009:SSA_0603|3end_Cobalt_transporter,_putative_592512..592662_POSITIVE 242 56 16 147 107 NC_009009:SSA_1066|3end_ABC-type_oligopeptide_transport_system,_putative_1086376..1086526_POSITIVE 242 51 12 104 64 NC_009009:SSA_0604|3end_hypothetical_protein_592992..593142_POSITIVE 241 56 13 123 78 NC_009009:SSA_0103|3end_Integral_membrane_protein,_putative_104630..104780_NEGATIVE 237 54 13 97 47 NC_009009:SSA_2135|3end_Transcriptional_repressor,_DeoR_family_(possibly_truncated),_putative_2137474..2137624_POSITIVE 236 70 21 131 67 NC_009009:SSA_1830|3end_Aminoglycoside_phosphotransferase,_putative_1821191..1821341_POSITIVE