Origin IGS: ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttttgaataagctaatatggaggggattatagaaatatcttattgagatatgtttttgtagtcctctttttattagtaaataaaatattttgaggagtgatgag Mask Tandem Repeat Region ================================================ ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Find is-nt database================================================ Query_seq: FN2120:FN2121|FN2120:FN2121:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:629021..629125 105 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2120:FN2121|FN2120:FN2121:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:629021..629125 105 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2120:FN2121|FN2120:FN2121:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:629021..629125 105 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Predict ORF larger than 30AA ================================================ ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac 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================================================ ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2120:FN2121|FN2120:FN2121:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:629021..629125 105 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: NC_003454_FN2120_FN2121|Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein|NEGATIVE:NEGATIVE|[629021,629125]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac ctcatcactcctcaaaatattttatttactaataaaaagaggactacaaaaacatatctcaataagatatttctataatcccctccatattagcttattcaaaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCAUCACUCCUCAAAAUAUUUUAUUUACUAAUAAAAAGAGGACUACAAAAACAUAUCUCAAUAAGAUAUUUCUAUAAUCCCCUCCAUAUUAGCUUAUUCAAAAC ............................((((((....((((...........((((((.....))))))...........))))..))))))............ (-10.25) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUGAAUAAGCUAAUAUGGAGGGGAUUAUAGAAAUAUCUUAUUGAGAUAUGUUUUUGUAGUCCUCUUUUUAUUAGUAAAUAAAAUAUUUUGAGGAGUGAUGAG ((((((.....(((((((..((((((((((((((((((((((...)))))))..)))))))))))))))..)))))))...)))))).................. (-29.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 771 90 41 181 132 NC_003454:FN2120|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628930..629160_NEGATIVE 244 86 41 110 69 NC_003454:FN1490|5end_4-hydroxybenzoate_octaprenyltransferase_2172283..2172513_NEGATIVE 243 84 57 41 7 NC_003454:FN1466|5end_hypothetical_protein_2148862..2149092_POSITIVE 242 90 41 104 57 NC_003454:FN2033|5end_Guanylate_kinase_537904..538134_NEGATIVE 215 93 54 36 3 NC_003454:FN1205|5end_Protease_1865162..1865392_NEGATIVE 210 99 51 214 166 NC_003454:FN0775|5end_putative_aminopeptidase_2_1430568..1430798_POSITIVE 205 45 3 129 97 NC_003454:FN1136|5end_Phosphonates_transport_ATP-binding_protein_phnC_1783057..1783287_POSITIVE 202 50 8 136 97 NC_003454:FN1622|5end_Uridylate_kinase_129640..129870_POSITIVE 201 91 60 105 76 NC_003454:FN0937|5end_Gamma-polyglutamic_acid_synthetase_1590245..1590475_NEGATIVE 199 43 2 131 88 NC_003454:FN0008|5end_quinolinate_synthetase_648010..648240_POSITIVE 196 97 64 47 16 NC_003454:FN0229|5end_hypothetical_protein_856570..856800_NEGATIVE 193 100 53 147 89 NC_003454:FN0628|5end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing]_1288257..1288487_NEGATIVE 193 89 51 166 115 NC_003454:FN0464|5end_hypothetical_protein_1109675..1109905_POSITIVE 192 100 57 89 39 NC_003454:FN0113|5end_Heat-inducible_transcription_repressor_hrcA_746557..746787_POSITIVE 190 100 53 167 116 NC_003454:FN1798|5end_Spermidine/putrescine_transport_system_permease_protein_potB_279938..280168_POSITIVE 188 47 1 67 15 NC_003454:FN1452|5end_Cell_division_protein_ftsA_2134076..2134306_NEGATIVE 187 98 53 115 67 NC_003454:FN2105|5end_Integral_membrane_protein_614701..614931_POSITIVE 185 45 8 54 14 NC_003454:FN0328|5end_Na(+)-linked_D-alanine_glycine_permease_963771..964001_NEGATIVE 185 23 1 111 92 NC_003454:FN2119|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628052..628282_NEGATIVE 184 99 67 187 147 NC_003454:FN0835|5end_hypothetical_protein_1498189..1498419_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 86 41 91 50 NC_003454:FN1491|3end_PTS_system,_IIA_component_2172302..2172452_NEGATIVE 243 84 57 40 6 NC_003454:FN1465|3end_Permease_2148941..2149091_POSITIVE 242 90 41 91 44 NC_003454:FN2034|3end_Protein_yicC_537917..538067_NEGATIVE 210 99 51 84 36 NC_003454:FN0774|3end_Hypothetical_cytosolic_protein_1430518..1430668_POSITIVE 205 45 3 51 19 NC_003454:FN1135|3end_Phosphonates-binding_protein_1783059..1783209_POSITIVE 202 50 8 71 32 NC_003454:FN1621|3end_elongation_factor_Ts_129655..129805_POSITIVE 196 97 64 98 67 NC_003454:FN0230|3end_hypothetical_protein_856519..856669_NEGATIVE 193 100 53 137 79 NC_003454:FN0629|3end_PTS_system,_IID_component_1288267..1288417_NEGATIVE 193 89 51 84 33 NC_003454:FN0463|3end_Hypothetical_cytosolic_protein_1109673..1109823_POSITIVE 192 100 57 52 2 NC_003454:FN0112|3end_hypothetical_protein_746600..746750_POSITIVE 188 47 1 70 18 NC_003454:FN1453|3end_hypothetical_protein_2134073..2134223_NEGATIVE 187 98 53 94 46 NC_003454:FN2104|3end_hypothetical_protein_614760..614910_POSITIVE 186 95 57 121 79 NC_003454:FN1687|3end_Gluconate_5-dehydrogenase_182900..183050_NEGATIVE 179 99 59 68 30 NC_003454:FN0556|3end_hypothetical_protein_1208380..1208530_NEGATIVE 172 94 60 69 39 NC_003454:FN1372|3end_Ribosomal_large_subunit_pseudouridine_synthase_D_2020022..2020172_NEGATIVE 170 86 68 87 68 NC_003454:FN1034|3end_Transcriptional_regulator,_TetR_family_1688345..1688495_POSITIVE 169 95 53 133 92 NC_003454:FN1383|3end_DNA_polymerase_III_alpha_subunit_2034455..2034605_NEGATIVE 168 88 66 89 67 NC_003454:FN1413|3end_translation_initiation_factor_IF-2B_subunit_alpha_2073221..2073371_NEGATIVE 168 95 65 52 19 NC_003454:FN0302|3end_Iron(III)_dicitrate_transport_ATP-binding_protein_fecE_937578..937728_POSITIVE 166 33 2 134 104 NC_003454:FN1370|3end_Endonuclease_2018990..2019140_NEGATIVE