Origin IGS: agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat .........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 atagtatagaaaaattcccaaacaaaatgctaatggaattaatacaacctttttatatcccttagttgtaagtagttttaaaaaagcccactcttttctcataattttacctttccctcctaatatttattatgttctacagttcatattatacaactttttctatttttgtaaaatttttataacaaattctttttgcattatctcagtaaatgttatataattaatattattatact Mask Tandem Repeat Region ================================================ agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Find is-nt database================================================ Query_seq: FN1263:FN1264|FN1263:FN1264:Cobalt chelatase:hypothetical protein:<-->:1920667..1920905 239 agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1263:FN1264|FN1263:FN1264:Cobalt chelatase:hypothetical protein:<-->:1920667..1920905 239 agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1263:FN1264|FN1263:FN1264:Cobalt chelatase:hypothetical protein:<-->:1920667..1920905 239 agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 114 End: 239 ................................................................................................................. M L G G K G K I M R K E W A F L K L L T T K G Y K K V V L I P L A F C L G I F L Y Y Protein_Len: 60 Strand: - Start: 20 End: 226 ................... S N T I F I K C F Y F F N Y L I F Q L V Y Y I N P P F P L I I L F S H A K K F S S V V L P Y L F T T N I G N A N Q K P M ............. agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 84 Start: 16 End: 45 ...............TTTGCATTATCTCAGTAAATGTTATATAAT.................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 135 End: 164 ......................................................................................................................................TTTTAAAAAAGCCCACTCTTTTCTCATAAT........................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1263:FN1264|FN1263:FN1264:Cobalt chelatase:hypothetical protein:<-->:1920667..1920905 239 agtataataatattaattatataacatttactgagataatgcaaaaagaatttgttataaaaattttacaaaaatagaaaaagttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat Intra-Species Hit: Count: 1 Min: 1 Max: 239 Len: 239 Subject: NC_003454_FN1263_FN1264|Cobalt chelatase:hypothetical protein|NEGATIVE:POSITIVE|[1920667,1920905]|239 HSP 1 e-value: 6.0E-84 bit: 311.0 Len: 157 Query Start:83 Query End:239 Subject Strand: POSITIVE Subject Start: 83 Subject End: 239 ..................................................................................gttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat ..................................................................................gttgtataatatgaactgtagaacataataaatattaggagggaaaggtaaaattatgagaaaagagtgggcttttttaaaactacttacaactaagggatataaaaaggttgtattaattccattagcattttgtttgggaatttttctatactat HSP 2 e-value: 2.0E-15 bit: 83.8 Len: 42 Query Start:1 Query End:42 Subject Strand: POSITIVE Subject Start: 1 Subject End: 42 agtataataatattaattatataacatttactgagataatgc..................................................................................................................................................................................................... agtataataatattaattatataacatttactgagataatgc..................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUAUAAUAAUAUUAAUUAUAUAACAUUUACUGAGAUAAUGCAAAAAGAAUUUGUUAUAAAAAUUUUACAAAAAUAGAAAAAGUUGUAUAAUAUGAACUGUAGAACAUAAUAAAUAUUAGGAGGGAAAGGUAAAAUUAUGAGAAAAGAGUGGGCUUUUUUAAAACUACUUACAACUAAGGGAUAUAAAAAGGUUGUAUUAAUUCCAUUAGCAUUUUGUUUGGGAAUUUUUCUAUACUAU ((((((.........((((((((((.(((.(((.(......)....(((((((.......))))))).......))).))).)))))))))).......((((..((((((...((((..........))))..))))))..(((((((....)))))))....)))).(((((((..............)))))))..((((((...(((.....)))..))))))....)))))).. (-33.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGUAUAGAAAAAUUCCCAAACAAAAUGCUAAUGGAAUUAAUACAACCUUUUUAUAUCCCUUAGUUGUAAGUAGUUUUAAAAAAGCCCACUCUUUUCUCAUAAUUUUACCUUUCCCUCCUAAUAUUUAUUAUGUUCUACAGUUCAUAUUAUACAACUUUUUCUAUUUUUGUAAAAUUUUUAUAACAAAUUCUUUUUGCAUUAUCUCAGUAAAUGUUAUAUAAUUAAUAUUAUUAUACU ..(((((((................(((((....((((((..........(((((((......(((((((.((((..(((.(((((......)))))....)))..))))....................((((..(....)..))))...)))))))...........)))))))...........))))))....))))).........(((((((......))))))).))))))) (-26.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 744 130 81 221 172 NC_003454:FN1263|5end_Cobalt_chelatase_1920576..1920806_NEGATIVE 234 228 188 205 160 NC_003454:FN1587|5end_Acetyltransferase_98841..99071_POSITIVE 232 150 107 67 21 NC_003454:FN0362|5end_ATP_synthase_B_chain,_sodium_ion_specific_993393..993623_NEGATIVE 225 152 114 221 185 NC_003454:FN1443|5end_Transposase_2111518..2111748_NEGATIVE 203 230 193 69 34 NC_003454:FN0337|5end_hypothetical_protein_971474..971704_NEGATIVE 202 155 126 34 6 NC_003454:FN1531|5end_Negative_regulator_of_murein_hydrolase_44970..45200_NEGATIVE 194 229 193 133 104 NC_003454:FN1380|5end_Citrate_lyase_beta_chain_2027248..2027478_POSITIVE 194 199 158 199 157 NC_003454:FN0859|5end_hypothetical_protein_1521229..1521459_NEGATIVE 193 210 178 208 167 NC_003454:FN0315|5end_Transcriptional_regulator,_AraC_family_951934..952164_POSITIVE 193 102 72 215 183 NC_003454:FN0234|5end_hypothetical_protein_859499..859729_NEGATIVE 191 77 33 78 34 NC_003454:FN0115|5end_hypothetical_protein_748511..748741_NEGATIVE 187 154 128 214 189 NC_003454:FN1357|5end_Transposase_2008189..2008419_POSITIVE 187 61 26 178 146 NC_003454:FN0681|5end_Transcriptional_regulator,_MarR_family_1336115..1336345_POSITIVE 187 154 128 214 189 NC_003454:FN0509|5end_Transposase_1160059..1160289_NEGATIVE 187 154 128 215 190 NC_003454:FN0140|5end_Transposase_772997..773227_NEGATIVE 187 154 128 214 189 NC_003454:FN1883|5end_Transposase_368863..369093_POSITIVE 187 154 128 215 190 NC_003454:FN1676|5end_Transposase_172739..172969_POSITIVE 184 220 173 103 46 NC_003454:FN0928|5end_O-sialoglycoprotein_endopeptidase_1583026..1583256_NEGATIVE 184 230 199 38 2 NC_003454:FN1749|5end_Pyruvate-flavodoxin_oxidoreductase_247461..247691_POSITIVE 181 205 171 215 180 NC_003454:FN1255|5end_NagD_protein_1911892..1912122_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 153 114 41 1 NC_003454:FN1477|3end_Hypothetical_membrane-spanning_protein_2160297..2160447_POSITIVE 206 132 96 39 7 NC_003454:FN0498|3end_hypothetical_protein_1141538..1141688_NEGATIVE 206 176 137 83 45 NC_003454:FN1942|3end_Hypothetical_cytosolic_protein_444000..444150_NEGATIVE 202 155 126 68 40 NC_003454:FN1532|3end_murein_hydrolase_exporter_44936..45086_NEGATIVE 200 160 117 90 30 NC_003454:FN1060|3end_Molybdate_metabolism_regulator_1707032..1707182_NEGATIVE 196 230 190 56 14 NC_003454:FN1748|3end_Pyruvate-flavodoxin_oxidoreductase_247559..247709_POSITIVE 195 212 174 78 37 NC_003454:FN1266|3end_UTP--glucose-1-phosphate_uridylyltransferase_1922158..1922308_NEGATIVE 194 229 193 130 101 NC_003454:FN1379|3end_Citrate_lyase_beta_chain_2027325..2027475_POSITIVE 194 199 158 122 80 NC_003454:FN0860|3end_hypothetical_protein_1521306..1521456_NEGATIVE 193 210 178 125 84 NC_003454:FN0314|3end_Caffeoyl-CoA_O-methyltransferase_951931..952081_POSITIVE 193 102 72 40 8 NC_003454:FN0235|3end_ABC_transporter_ATP-binding_protein_859674..859824_NEGATIVE 192 155 114 47 7 NC_003454:FN0636|3end_hypothetical_protein_1295609..1295759_POSITIVE 187 154 128 105 80 NC_003454:FN1356|3end_hypothetical_protein_2008160..2008310_POSITIVE 187 154 128 105 80 NC_003454:FN0510|3end_hypothetical_protein_1160168..1160318_NEGATIVE 187 154 128 105 80 NC_003454:FN1882|3end_hypothetical_protein_368834..368984_POSITIVE 186 220 177 55 2 NC_003454:FN0447|3end_NIFS_protein_1090574..1090724_POSITIVE 186 176 138 51 11 NC_003454:FN1941|3end_ClpB_protein_443953..444103_POSITIVE 185 150 112 60 13 NC_003454:FN1666|3end_hypothetical_protein_163257..163407_POSITIVE 184 220 173 122 65 NC_003454:FN0929|3end_ATP/GTP_hydrolase_1583007..1583157_NEGATIVE 182 156 112 55 4 NC_003454:FN0012|3end_DNA_topology_modulation_protein_FLAR-related_protein_651617..651767_NEGATIVE