Origin IGS: taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc .........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 gataattcagcccaatgcgaagcgttgggggaaaaggcatcgcatcccggcggagggctgtaagcctgacgtaaccattgtcgtgcattcgtacgtccatgattaatggtaaacgccgaacagtgtatcgcgtaatttgggataaagaaaggtaacgactttatgaatttacgcccgttacagaagggaagaccttccgcaacgggcgtaaaagtataagtttcgcgttgtggattta Mask Tandem Repeat Region ================================================ taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Find is-nt database================================================ Query_seq: TF1273:TF1274|TF1273:TF1274:hypothetical protein:hypothetical protein:->->:1357523..1357760 238 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1273:TF1274|TF1273:TF1274:hypothetical protein:hypothetical protein:->->:1357523..1357760 238 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1273:TF1274|TF1273:TF1274:hypothetical protein:hypothetical protein:->->:1357523..1357760 238 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Predict ORF larger than 30AA ================================================ Protein_Len: 54 Strand: + Start: 75 End: 236 .......................................................................... M K S L P F F I P N Y A I H C S A F T I N H G R T N A R Q W L R Q A Y S P P P G C D A F S P N A S H W A E L .. Protein_Len: 45 Strand: + Start: 103 End: 237 ...................................................................................................... M T R Y T V R R L P L I M D V R M H D N G Y V R L T A L R R D A M P F P P T L R I G L N Y . Protein_Len: 34 Strand: - Start: 136 End: 237 ....................................................................................................................................... D H V Y S H V V I T V D P K C G E A P I R H R K G W R K A N P Q I M . taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc 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================================================ taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 51 HP_score: -2.6 Tail_Score: -3.69621 Start: 19 End: 77 Full_Region: gaaaggtaacgactt tatgaatttacgcccgttacagaagg gaaga ccttccgcaacgggcgtaaaagtataag tttcgcgttgtggat ..................tatgaatttacgcccgttacagaagggaagaccttccgcaacgggcgtaaaagtataag................................................................................................................................................................. TransTerm Strand: - Conf: 95 HP_score: -15.5 Tail_Score: -2.81291 Start: 20 End: 78 Full_Region: agaaaggtaacgact ttatgaatttacgcccgttacagaagg gaaga ccttccgcaacgggcgtaaaagtataa gtttcgcgttgtgga ...................ttatgaatttacgcccgttacagaagggaagaccttccgcaacgggcgtaaaagtataa................................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -24.6 Tail_Score: -3.17688 Start: 27 End: 71 Full_Region: CGCGAAACTTATACT TTTACGCCCGTTGCGGAAGG TCTTC CCTTCTGTAACGGGCGTAAA TTCATAAAGTCGTTA ..........................TTTACGCCCGTTGCGGAAGGTCTTCCCTTCTGTAACGGGCGTAAA....................................................................................................................................................................... Find igs database================================================ Query_seq: TF1273:TF1274|TF1273:TF1274:hypothetical protein:hypothetical protein:->->:1357523..1357760 238 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Intra-Species Hit: Count: 9 Min: 1 Max: 238 Len: 238 Subject: tfor_TF1273_TF1274|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1357523,1357760]|238 HSP 1 e-value: 1.0E-132 bit: 472.0 Len: 238 Query Start:1 Query End:238 Subject Strand: POSITIVE Subject Start: 1 Subject End: 238 taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc taaatccacaacgcgaaacttatacttttacgcccgttgcggaaggtcttcccttctgtaacgggcgtaaattcataaagtcgttacctttctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc Subject: tfor_TF2047_TF2048|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2210359,2210782]|424 HSP 1 e-value: 5.0E-69 bit: 262.0 Len: 136 Query Start:103 Query End:238 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 ......................................................................................................attacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc ......................................................................................................attacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgcctttttccccaacgcttcgcattgggctgaattatc Subject: tfor_TF0029_TF0030|hypothetical protein:N-acetylneuraminate lyase|POSITIVE:POSITIVE|[25123,25909]|787 HSP 1 e-value: 3.0E-55 bit: 216.0 Len: 144 Query Start:94 Query End:237 Subject Strand: NEGATIVE Subject Start: 403 Subject End: 547 .............................................................................................ttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgc-cttttcccccaacgcttcgcattgggctgaattat. .............................................................................................ttatcccaaattacgcgatacactgttcggtgtttaccattaataatggacgtacgaatgtacgacaatggttacgtcaagcttacagccctccgccgagatgcgatgctttttttccccaacgcttcgcattgggctgaattat. Subject: tfor_TF0467_TF0468|acetyltransferase-related protein:hypothetical protein|POSITIVE:POSITIVE|[486604,487068]|465 HSP 1 e-value: 4.0E-48 bit: 192.0 Len: 132 Query Start:91 Query End:222 Subject Strand: POSITIVE Subject Start: 17 Subject End: 149 ..........................................................................................tctttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggc-ttacagccctccgccgggatgcgatgccttttcccccaacgcttcgc................ ..........................................................................................tctttatcccaaattacgcgatacattgttcggcgtttaccattaataatggacgtgcgaatgtacgacaatggttacgtcaggcttttcagccctccgccgagatgcgatgcctttttccccaacgcttcgc................ Subject: tfor_TF0339_TF0340|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[363808,364032]|225 HSP 1 e-value: 2.0E-46 bit: 186.0 Len: 134 Query Start:103 Query End:236 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 ......................................................................................................attacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaatta.. ......................................................................................................attacgcgatacacggttcggcgtttaccattaataatgaacgtacgaatgtacgacaagggttacgtcaggcttacagcccttcgccgagacgcgatgcctttttccccagcgcttcgcattgggctgaatta.. Subject: tfor_TF1473_TF1474|hypothetical protein:6- phosphogluconolactonase|POSITIVE:POSITIVE|[1567027, 1567481]|455 HSP 1 e-value: 2.0E-43 bit: 176.0 Len: 142 Query Start:93 Query End:234 Subject Strand: POSITIVE Subject Start: 29 Subject End: 172 ............................................................................................tttatcccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgc--cttttcccccaacgcttcgcattgggctgaat.... ............................................................................................tttaacccaaatcacgcgatatactgttgggcgttttccattaataatggacgtatgaatgtacgacaatggttacgtcaggcttacagccctccgccgagatacgatgctttttttcccccaacgcttcgcattgggctgaat.... Subject: tfor_TF0585_TF0586|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[616824,617452]|629 HSP 1 e-value: 2.0E-43 bit: 176.0 Len: 137 Query Start:98 Query End:234 Subject Strand: NEGATIVE Subject Start: 388 Subject End: 524 .................................................................................................cccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaat.... .................................................................................................cccaaattacgcggtaccctattgggcgtttaccattaataatggacgtacgaatgtacgacaagggttacgtcaggcttacagccctccgccgaaatgtgaagcctttttccccaacgcttcgcattgggctgaat.... Subject: tfor_TF0179_TF0180|pyrophosphate-energized proton pump:carboxynorspermidine decarboxylase|POSITIVE:POSITIVE|[190752,191406]|655 HSP 1 e-value: 3.0E-42 bit: 172.0 Len: 142 Query Start:93 Query End:234 Subject Strand: POSITIVE Subject Start: 127 Subject End: 273 ............................................................................................tttatcccaaattacgcgatacactgttcggcgtttaccatta-----atcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccctccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaat.... ............................................................................................tttaccccaaattacgcgatacactgttgggcgtttaccattacattaataatgtacgtacgaatgtacgacaagggttacgtcaggcttacagccctccgccgagacgcgatgccttttttcccaacgcttcgcattgggctgaat.... Subject: tfor_TF2201_TF2202|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2378345,2378821]|477 HSP 1 e-value: 7.0E-19 bit: 95.6 Len: 141 Query Start:98 Query End:238 Subject Strand: POSITIVE Subject Start: 214 Subject End: 352 .................................................................................................cccaaattacgcgatacactgttcggcgtttaccattaatcatggacgtacgaatgcacgacaatggttacgtcaggcttacagccct-ccgccgggatgcgatgccttttcccccaacgcttcgcattgggctgaattatc .................................................................................................cccaaattatgcgaccccctgtttggtgtttaccattaataatggatgtgcaaatgtatgacaatggttatgtcaggcttacagccctcccaacgggat---attgctttttccccaacgcttcgcattgggctgaattatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCCACAACGCGAAACUUAUACUUUUACGCCCGUUGCGGAAGGUCUUCCCUUCUGUAACGGGCGUAAAUUCAUAAAGUCGUUACCUUUCUUUAUCCCAAAUUACGCGAUACACUGUUCGGCGUUUACCAUUAAUCAUGGACGUACGAAUGCACGACAAUGGUUACGUCAGGCUUACAGCCCUCCGCCGGGAUGCGAUGCCUUUUCCCCCAACGCUUCGCAUUGGGCUGAAUUAUC ...........((((...........((((((((((((((((((((.....))))))))))))))))))))...((((((...........)))))).........)))).......((..(((((..((((((..((.((.(........).)).)).)))))).)))))..))...((((((........(((((((.((.............)).)))))))))))))....... (-76.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAUUCAGCCCAAUGCGAAGCGUUGGGGGAAAAGGCAUCGCAUCCCGGCGGAGGGCUGUAAGCCUGACGUAACCAUUGUCGUGCAUUCGUACGUCCAUGAUUAAUGGUAAACGCCGAACAGUGUAUCGCGUAAUUUGGGAUAAAGAAAGGUAACGACUUUAUGAAUUUACGCCCGUUACAGAAGGGAAGACCUUCCGCAACGGGCGUAAAAGUAUAAGUUUCGCGUUGUGGAUUUA ..........(((((((((((((..(((((((....((...)).)))).(((..((((.....))))..)))..)))..(((((((.(((....((((..(((((.(((((.((........)).)))))..)))))..))))...)))..)).)))))..((((..((((((((((((.(.(((((.....))))).).))))))))))))..)))).))))))))))).))..... (-84.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1027 230 181 54 6 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 995 230 181 226 177 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 995 230 181 169 120 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 995 230 181 165 116 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 966 220 171 63 14 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 919 230 181 192 143 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 818 187 141 185 139 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 773 230 181 195 143 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 765 187 141 50 4 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 736 200 151 49 3 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 717 230 181 165 119 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 689 230 181 175 127 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 689 230 181 54 6 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 593 230 181 197 150 tfor:TF2036|5end_possible_pyruvate_formate-lyase_activating_enzyme_2196302..2196532_POSITIVE 576 220 171 67 17 tfor:TF1716|5end_hypothetical_protein_1837442..1837672_POSITIVE 553 137 93 227 183 tfor:TF0680|5end_tail-specific_protease_721393..721623_POSITIVE 538 220 171 158 108 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 518 230 181 99 27 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 518 230 181 92 20 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 501 216 171 198 147 tfor:TF3082|5end_conserved_hypothetical_protein_3316431..3316661_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 995 230 181 84 35 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 978 220 171 112 63 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 966 220 171 132 83 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 816 230 187 46 3 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 765 187 141 139 93 tfor:TF0678|3end_hypothetical_protein_721335..721485_POSITIVE 678 230 193 37 1 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 672 70 27 63 20 tfor:TF1273|3end_hypothetical_protein_1357462..1357612_POSITIVE 559 230 181 58 1 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 538 220 171 139 89 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 494 129 98 151 120 tfor:TF0822|3end_hypothetical_protein_880764..880914_POSITIVE 442 200 151 144 78 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 436 212 171 128 81 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 419 188 143 124 68 tfor:TF2370|3end_tRNA_delta-2_isopentenylpyrophosphate_transferase_2537044..2537194_POSITIVE 392 67 25 76 21 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE 390 210 161 83 26 tfor:TF0340|3end_hypothetical_protein_364257..364407_POSITIVE 384 210 161 66 9 tfor:TF0960|3end_beta-galactosidase_1010506..1010656_POSITIVE 379 217 171 94 27 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 377 203 164 141 102 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 366 203 163 135 86 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 365 229 181 117 63 tfor:TF3022|3end_chorismate_synthase_3247301..3247451_POSITIVE