Origin IGS: atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgctaggctgcgtaatatccctcacgagcaaccaatgccgacttatacgaccccgatattatgccttcggttctggtcaaagcccatgtcgctattgcgtccataacagacgatctcttacggctgcaataggtcacctattacggctagaatagatgccctattacgaccgtaatcgatgacctgtttcagcgctacactagacggtctcgtgtagtactacaatcgatgatctattacagctacaatagggctcatgtttcagtactacactaggcagtctcgtgaaataccataacaaatgataagaaaagaacttttatgagagcatcttttatttctgcagaggggcaattactcgattctccttgttgaaggaaaataatgtat Mask Tandem Repeat Region ================================================ atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Find is-nt database================================================ Query_seq: TDE1619:TDE1620|TDE1619:TDE1620:hypothetical protein:hypothetical protein:-><-:1666659..1667048 390 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1619:TDE1620|TDE1619:TDE1620:hypothetical protein:hypothetical protein:-><-:1666659..1667048 390 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1619:TDE1620|TDE1619:TDE1620:hypothetical protein:hypothetical protein:-><-:1666659..1667048 390 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 5 End: 115 .... M I F L Q Q G E S S N C P S A E I K D A L I K V L F L S F V M V F H E T A ................................................................................................................................................................................................................................................................................... Protein_Len: 33 Strand: + Start: 90 End: 188 ......................................................................................... M L W Y F T R L P S V V L K H E P Y C S C N R S S I V V L H E T V .......................................................................................................................................................................................................... Protein_Len: 45 Strand: + Start: 254 End: 385 ............................................................................................................................................................................................................................................................. M T Y C S R K R S S V M D A I A T W A L T R T E G I I S G S Y K S A L V A R E G Y Y A A * ..... Protein_Len: 32 Strand: - Start: 288 End: 383 ............................................................................................................................................................................................................................................................................................... P R L L S M P K S W F R L C L I P T T Y T P M P Q E H P I N R M ....... Protein_Len: 46 Strand: - Start: 239 End: 376 .............................................................................................................................................................................................................................................. E L R L L H G I A A T L S R R N H V C Y R C P S Q G S G F A Y Y R P R I L R C Q N S T L S M .............. Protein_Len: 37 Strand: - Start: 118 End: 228 ..................................................................................................................... H L V S V H A R N Y S Y Y I M S Q L V V R S R R T Y R Q F L D D I V T T M .................................................................................................................................................................. atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca 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================================================ atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 57 HP_score: -5.2 Tail_Score: -3.55563 Start: 205 End: 261 Full_Region: ctcttacggctgcaa taggtcacctattacggctagaatag atgcc ctattacgaccgtaatcgatgacctg tttcagcgctacact ............................................................................................................................................................................................................taggtcacctattacggctagaatagatgccctattacgaccgtaatcgatgacctg................................................................................................................................. TransTerm Strand: + Conf: 79 HP_score: -10.7 Tail_Score: -3.02511 Start: 207 End: 259 Full_Region: TGTAGCGCTGAAACA GGTCATCGATTACGGTCGTAATAGG GCA TCTATTCTAGCCGTAATAGGTGACC TATTGCAGCCGTAAG ..............................................................................................................................................................................................................GGTCATCGATTACGGTCGTAATAGGGCATCTATTCTAGCCGTAATAGGTGACC................................................................................................................................... TransTerm Strand: - Conf: 57 HP_score: -5.6 Tail_Score: -3.35597 Start: 207 End: 259 Full_Region: cttacggctgcaata ggtcacctattacggctagaatag atgcc ctattacgaccgtaatcgatgacc tgtttcagcgctaca ..............................................................................................................................................................................................................ggtcacctattacggctagaatagatgccctattacgaccgtaatcgatgacc................................................................................................................................... Find igs database================================================ Query_seq: TDE1619:TDE1620|TDE1619:TDE1620:hypothetical protein:hypothetical protein:-><-:1666659..1667048 390 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Intra-Species Hit: Count: 1 Min: 1 Max: 390 Len: 390 Subject: NC_002967_TDE1619_TDE1620|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[1666659,1667048]|390 HSP 1 e-value: 0.0 bit: 773.0 Len: 390 Query Start:1 Query End:390 Subject Strand: POSITIVE Subject Start: 1 Subject End: 390 atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca atacattattttccttcaacaaggagaatcgagtaattgcccctctgcagaaataaaagatgctctcataaaagttcttttcttatcatttgttatggtatttcacgagactgcctagtgtagtactgaaacatgagccctattgtagctgtaatagatcatcgattgtagtactacacgagaccgtctagtgtagcgctgaaacaggtcatcgattacggtcgtaatagggcatctattctagccgtaataggtgacctattgcagccgtaagagatcgtctgttatggacgcaatagcgacatgggctttgaccagaaccgaaggcataatatcggggtcgtataagtcggcattggttgctcgtgagggatattacgcagcctagca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUACAUUAUUUUCCUUCAACAAGGAGAAUCGAGUAAUUGCCCCUCUGCAGAAAUAAAAGAUGCUCUCAUAAAAGUUCUUUUCUUAUCAUUUGUUAUGGUAUUUCACGAGACUGCCUAGUGUAGUACUGAAACAUGAGCCCUAUUGUAGCUGUAAUAGAUCAUCGAUUGUAGUACUACACGAGACCGUCUAGUGUAGCGCUGAAACAGGUCAUCGAUUACGGUCGUAAUAGGGCAUCUAUUCUAGCCGUAAUAGGUGACCUAUUGCAGCCGUAAGAGAUCGUCUGUUAUGGACGCAAUAGCGACAUGGGCUUUGACCAGAACCGAAGGCAUAAUAUCGGGGUCGUAUAAGUCGGCAUUGGUUGCUCGUGAGGGAUAUUACGCAGCCUAGCA .......(((((((((....))))))))).(.(((((...(((((.((((........((((((..(...(((((((...((...((((((((((((((.(((((....(((((.....)))))..))))).....(((((((((..((((((((.(((.(((.....(((..((((((.((.....)).))))))..))).....))).))).))))))))..)))))))))..........)))))))))))))).(((((((..((((((.((.....)).))))))..))))))).))...)))))))((((....((((..........))))))))......)..))))))..))))....)))))..))))).)......... (-127.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAGGCUGCGUAAUAUCCCUCACGAGCAACCAAUGCCGACUUAUACGACCCCGAUAUUAUGCCUUCGGUUCUGGUCAAAGCCCAUGUCGCUAUUGCGUCCAUAACAGACGAUCUCUUACGGCUGCAAUAGGUCACCUAUUACGGCUAGAAUAGAUGCCCUAUUACGACCGUAAUCGAUGACCUGUUUCAGCGCUACACUAGACGGUCUCGUGUAGUACUACAAUCGAUGAUCUAUUACAGCUACAAUAGGGCUCAUGUUUCAGUACUACACUAGGCAGUCUCGUGAAAUACCAUAACAAAUGAUAAGAAAAGAACUUUUAUGAGAGCAUCUUUUAUUUCUGCAGAGGGGCAAUUACUCGAUUCUCCUUGUUGAAGGAAAAUAAUGUAU .((((((((((((((((((.....((.(((.....))))).(......).....))))))))))....)).))))))....((((.((((((....)))............(((((((((..((((.(((((((((.(.(((((((....(((((.....)))))....))))))).).))))))))).))))....(((.((((.((((.((((((((((..(((..((((((((((........))))))..)))))))..)))))))))).)))).)))).)))...................................)))))).)))..........)))...))))...(((...(((.(((((....))))).)))...))). (-110.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 756 360 311 121 72 NC_002967:TDE1622|5end_hypothetical_protein_1670981..1671211_NEGATIVE 407 280 231 225 168 NC_002967:TDE2329|5end_hypothetical_protein_2366493..2366723_NEGATIVE 390 308 261 52 11 NC_002967:TDE1856|5end_radical_SAM_domain_protein_1883133..1883363_POSITIVE 347 64 23 162 113 NC_002967:TDE2720|5end_conserved_hypothetical_protein_TIGR00046_2777832..2778062_NEGATIVE 344 330 283 221 153 NC_002967:TDE0848|5end_hypothetical_protein_871269..871499_POSITIVE 340 359 315 199 158 NC_002967:TDE1846|5end_hypothetical_protein_1875426..1875656_NEGATIVE 336 371 340 74 44 NC_002967:TDE2706|5end_hypothetical_protein_2753793..2754023_NEGATIVE 335 370 322 84 34 NC_002967:TDE1999|5end_DNA_polymerase_III_domain_protein_2017063..2017293_POSITIVE 334 389 343 59 9 NC_002967:TDE2209|5end_CarB_family_protein_2247589..2247819_POSITIVE 331 300 253 122 66 NC_002967:TDE1926|5end_hypothetical_protein_1942495..1942725_POSITIVE 331 310 263 74 26 NC_002967:TDE1056|5end_hypothetical_protein_1085210..1085440_POSITIVE 329 290 241 229 164 NC_002967:TDE1738|5end_M23/M37_peptidase_domain_protein_1790536..1790766_POSITIVE 327 350 304 72 19 NC_002967:TDE0256|5end_hypothetical_protein_291440..291670_NEGATIVE 317 357 316 52 10 NC_002967:TDE0124|5end_rhomboid_family_protein_142873..143103_NEGATIVE 315 385 343 206 157 NC_002967:TDE2061|5end_hypothetical_protein_2087792..2088022_NEGATIVE 315 255 212 169 124 NC_002967:TDE1127|5end_TPR_domain_protein_1158278..1158508_POSITIVE 314 122 84 164 121 NC_002967:TDE2414|5end_hypothetical_protein_2441620..2441850_NEGATIVE 313 280 231 56 2 NC_002967:TDE2786|5end_DNA_polymerase_III_subunit_alpha_2842672..2842902_NEGATIVE 313 360 311 201 143 NC_002967:TDE1745|5end_hypothetical_protein_1799474..1799704_NEGATIVE 312 270 221 207 167 NC_002967:TDE0210|5end_cob(I)yrinic_acid_a,c-diamide_adenosyltransferase_245551..245781_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 756 360 311 84 35 NC_002967:TDE1623|3end_hypothetical_protein_1671018..1671168_NEGATIVE 390 308 261 52 11 NC_002967:TDE1855|3end_hypothetical_protein_1883213..1883363_POSITIVE 335 370 322 84 34 NC_002967:TDE1998|3end_phosphohexose_mutase_family_protein_2017143..2017293_POSITIVE 323 295 253 147 96 NC_002967:TDE1925|3end_peptidyl-prolyl_cis-trans_isomerase,_FKBP-type_1942605..1942755_POSITIVE 319 370 323 95 47 NC_002967:TDE2422|3end_ribosomal_protein_L7/L12_2452911..2453061_NEGATIVE 314 122 84 71 28 NC_002967:TDE2415|3end_hypothetical_protein_2441713..2441863_NEGATIVE 312 270 221 137 97 NC_002967:TDE0209|3end_arsenical_pump_membrane_protein,_putative_245561..245711_POSITIVE 301 140 98 57 7 NC_002967:TDE2656|3end_cobalt_chelatase_2693900..2694050_POSITIVE 299 305 261 91 45 NC_002967:TDE0612|3end_hypothetical_protein_647367..647517_NEGATIVE 298 329 282 86 27 NC_002967:TDE2250|3end_hypothetical_protein_2289409..2289559_POSITIVE 297 54 11 151 103 NC_002967:TDE2721|3end_helicase_domain_protein_2777833..2777983_NEGATIVE 297 308 264 51 5 NC_002967:TDE2144|3end_hypothetical_protein_2180451..2180601_NEGATIVE 297 310 264 109 57 NC_002967:TDE0967|3end_hypothetical_protein_992529..992679_POSITIVE 296 368 321 74 23 NC_002967:TDE1451|3end_hypothetical_protein_1497850..1498000_NEGATIVE 295 269 231 60 29 NC_002967:TDE1546|3end_hypothetical_protein_1591204..1591354_POSITIVE 295 365 321 146 104 NC_002967:TDE0823|3end_(3R)-hydroxymyristoyl-(acyl-carrier-protein)_dehydratase,_putative_845252..845402_POSITIVE 295 390 350 148 101 NC_002967:TDE0473|3end_heavy_metal_translocating_P-type_ATPase_530800..530950_POSITIVE 294 218 178 140 93 NC_002967:TDE2739|3end_hypothetical_protein_2795169..2795319_POSITIVE 294 370 321 114 64 NC_002967:TDE2437|3end_cyclic_nucleotide_binding_domain_protein_2467418..2467568_NEGATIVE 293 239 196 53 7 NC_002967:TDE0388|3end_hypothetical_protein_440050..440200_POSITIVE