Origin IGS: tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa .........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 ttcttctacaattccagagaacataattcctttttattaaaaactttattaaactttgcaggaatgcctttacctacaaaaagaaggtggaactcctttggaactccacctttttgtagtcctcgtcttgagaggatttgagaaagccgcatcgatgatgtgatgaaaagtccgagtatctatgataagagaactctctgcttttgtaatccaccgaccctaaggtttagtcgctgaaatgcgttttatgtggcccgccattgtcaagagaagtcttctcggttttcagatttatttgatgactatcccaatcgaatcgatacgactatagcttttcctttctaagtacaaaggtagtactttttttcaatgtaccaaatatttgcacta Mask Tandem Repeat Region ================================================ tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Find is-nt database================================================ Query_seq: PI0976:PI0977|PI0976:PI0977:dihydrolipoamide dehydrogenase (dihydrolipoyl dehydrogenanse):riboflavin synthase, alpha subunit:->->:903793..904182 390 tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0976:PI0977|PI0976:PI0977:dihydrolipoamide dehydrogenase (dihydrolipoyl dehydrogenanse):riboflavin synthase, alpha subunit:->->:903793..904182 390 tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0976:PI0977|PI0976:PI0977:dihydrolipoamide dehydrogenase (dihydrolipoyl dehydrogenanse):riboflavin synthase, alpha subunit:->->:903793..904182 390 tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 177 End: 314 ................................................................................................................................................................................ M D Y K S R E F S Y H R Y S D F S S H H R C G F L K S S Q D E D Y K K V E F Q R S S T F F L ............................................................................ Protein_Len: 46 Strand: + Start: 181 End: 318 .................................................................................................................................................................................... M T K A E S S L I I D T R T F H H I I D A A F S N P L K T R T T K R W S S K G V P P S F C R ........................................................................ Protein_Len: 57 Strand: + Start: 212 End: 382 ................................................................................................................................................................................................................... M L G L F I T S S M R L S Q I L S R R G L Q K G G V P K E F H L L F V G K G I P A K F N K V F N K K E L C S L E L ........ Protein_Len: 35 Strand: - Start: 231 End: 335 ...................................................................................................................................................................................................................................... M M S A A K E F G R L V L V V F L H L E L P T G G E K Q L Y L C E Q M ....................................................... Protein_Len: 30 Strand: - Start: 63 End: 152 .............................................................. L R I S E I P I T M L Y I Q F G L L S R K V I A P W M F R M .............................................................................................................................................................................................................................................. Protein_Len: 31 Strand: - Start: 49 End: 141 ................................................ F P F A I T T D I R N P Y D D F L D S F R S S K E Q C H R A M ......................................................................................................................................................................................................................................................... tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa 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================================================ tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 76 HP_score: -2.8 Tail_Score: -5.50499 Start: 31 End: 45 Full_Region: gcttttcctttctaa gtacaa agg tagtac tttttttcaatgtac ..............................gtacaaaggtagtac......................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 93 HP_score: -11.2 Tail_Score: -4.87665 Start: 278 End: 308 Full_Region: AGACGAGGACTACAA AAAGGTGGAGTTCC AAA GGAGTTCCACCTTC TTTTTGTAGGTAAAG .....................................................................................................................................................................................................................................................................................AAAGGTGGAGTTCCAAAGGAGTTCCACCTTC.................................................................................. TransTerm Strand: + Conf: 100 HP_score: -12.9 Tail_Score: -4.5448 Start: 281 End: 305 Full_Region: CGAGGACTACAAAAA GGTGGAGTTCC AAA GGAGTTCCACC TTCTTTTTGTAGGTA ........................................................................................................................................................................................................................................................................................GGTGGAGTTCCAAAGGAGTTCCACC..................................................................................... TransTerm Strand: - Conf: 90 HP_score: -8.5 Tail_Score: -4.93296 Start: 281 End: 305 Full_Region: tacctacaaaaagaa ggtggaactcc ttt ggaactccacc tttttgtagtcctcg ........................................................................................................................................................................................................................................................................................ggtggaactcctttggaactccacc..................................................................................... TransTerm Strand: + Conf: 42 HP_score: -2.6 Tail_Score: -2.86689 Start: 311 End: 336 Full_Region: GAGTTCCACCTTCTT TTTGTAGGTA AAGGCA TTCCTGCAAA GTTTAATAAAGTTTT ......................................................................................................................................................................................................................................................................................................................TTTGTAGGTAAAGGCATTCCTGCAAA...................................................... Find igs database================================================ Query_seq: PI0976:PI0977|PI0976:PI0977:dihydrolipoamide dehydrogenase (dihydrolipoyl dehydrogenanse):riboflavin synthase, alpha subunit:->->:903793..904182 390 tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Intra-Species Hit: Count: 1 Min: 1 Max: 390 Len: 390 Subject: pint_PI0976_PI0977|dihydrolipoamide dehydrogenase (dihydrolipoyl dehydrogenanse):riboflavin synthase, alpha subunit|POSITIVE:POSITIVE|[903793,904182]|390 HSP 1 e-value: 0.0 bit: 731.0 Len: 390 Query Start:1 Query End:390 Subject Strand: POSITIVE Subject Start: 1 Subject End: 390 tagtgcaaatatttggtacattgnnnnnnngtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa tagtgcaaatatttggtacattgaaaaaaagtactacctttgtacttagaaaggaaaagctatagtcgtatcgattcgattgggatagtcatcaaataaatctgaaaaccgagaagacttctcttgacaatggcgggccacataaaacgcatttcagcgactaaaccttagggtcggtggattacaaaagcagagagttctcttatcatagatactcggacttttcatcacatcatcgatgcggctttctcaaatcctctcaagacgaggactacaaaaaggtggagttccaaaggagttccaccttctttttgtaggtaaaggcattcctgcaaagtttaataaagtttttaataaaaaggaattatgttctctggaattgtagaagaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUGCAAAUAUUUGGUACAUUGAAAAAAAGUACUACCUUUGUACUUAGAAAGGAAAAGCUAUAGUCGUAUCGAUUCGAUUGGGAUAGUCAUCAAAUAAAUCUGAAAACCGAGAAGACUUCUCUUGACAAUGGCGGGCCACAUAAAACGCAUUUCAGCGACUAAACCUUAGGGUCGGUGGAUUACAAAAGCAGAGAGUUCUCUUAUCAUAGAUACUCGGACUUUUCAUCACAUCAUCGAUGCGGCUUUCUCAAAUCCUCUCAAGACGAGGACUACAAAAAGGUGGAGUUCCAAAGGAGUUCCACCUUCUUUUUGUAGGUAAAGGCAUUCCUGCAAAGUUUAAUAAAGUUUUUAAUAAAAAGGAAUUAUGUUCUCUGGAAUUGUAGAAGAA .(((((.......((((((.((.....)).)))))).((((((.(((.((.((((........((((((((((((..((((((((.((((..........((((.....(((((.(....))))))......(((............)))..((((.(((((.........))))).)))).........))))((((..(((......))).)))).))))..)).))).)))))))))))))))........)))).))))))))))).(((((((((((((((..(((...)))..)))))))...))))))))......))))).((((((((...((((.(((((((.......))))))).))))..))....))))))..... (-99.59) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUCUACAAUUCCAGAGAACAUAAUUCCUUUUUAUUAAAAACUUUAUUAAACUUUGCAGGAAUGCCUUUACCUACAAAAAGAAGGUGGAACUCCUUUGGAACUCCACCUUUUUGUAGUCCUCGUCUUGAGAGGAUUUGAGAAAGCCGCAUCGAUGAUGUGAUGAAAAGUCCGAGUAUCUAUGAUAAGAGAACUCUCUGCUUUUGUAAUCCACCGACCCUAAGGUUUAGUCGCUGAAAUGCGUUUUAUGUGGCCCGCCAUUGUCAAGAGAAGUCUUCUCGGUUUUCAGAUUUAUUUGAUGACUAUCCCAAUCGAAUCGAUACGACUAUAGCUUUUCCUUUCUAAGUACAAAGGUAGUACUUUUUUUCAAUGUACCAAAUAUUUGCACUA ((((.((........))))))...................................((((((..((((((...((((((...(((((((((..(((...)))..))))))))))))))).....((((((((((((...(((..((.((.((((((....((((....((((((((((....(((...(((((..((...((((((((((((((.((((....))))....(((......)))......))))......)))).)))))).))..))))).....)))....))))))..))))......)))).)))))).)).))....))).))))))).))).)).))))))((((...........))))......))))))... (-87.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 169 123 211 163 pint:PI2169|5end_hypothetical_protein_2111706..2111936_POSITIVE 345 169 123 95 47 pint:PI2167|5end_hypothetical_protein_2111590..2111820_POSITIVE 325 189 146 164 114 pint:PI1141|5end_hypothetical_protein_1069463..1069693_POSITIVE 321 298 255 70 19 pint:PI0253|5end_conjugative_transposon_protein,_TraD_248294..248524_POSITIVE 314 270 224 101 56 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 312 187 148 69 12 pint:PI0355|5end_probable__N-acetylmuramoyl-L-alanine_amidase_326157..326387_POSITIVE 307 180 131 125 82 pint:PI1785|5end_conserved_hypothetical_protein_1717122..1717352_POSITIVE 305 276 234 38 1 pint:PI1726|5end_ATP-dependent_DNA_helicase_1643402..1643632_POSITIVE 304 50 1 183 135 pint:PI0372|5end_conserved_hypothetical_protein;_possible_ATPase_342011..342241_POSITIVE 301 318 274 231 186 pint:PI1414|5end_conserved_hypothetical_protein_1333913..1334143_POSITIVE 301 319 275 46 1 pint:PI1413|5end_hypothetical_protein_1333727..1333957_POSITIVE 301 159 111 66 15 pint:PI0258|5end_conjugative_transposon_protein,_TraG_249722..249952_POSITIVE 300 150 108 68 29 pint:PI2052|5end_hypothetical_protein_2008594..2008824_POSITIVE 300 340 291 101 50 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 299 320 273 166 112 pint:PI1244|5end_hypothetical_protein_1168803..1169033_POSITIVE 296 160 119 84 36 pint:PI1847|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1792006..1792236_POSITIVE 296 159 123 185 149 pint:PI1453|5end_probable_thiamine_pyrophosphokinase_1375982..1376212_POSITIVE 294 179 133 212 156 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 294 173 131 135 79 pint:PI1010|5end_conserved_hypothetical_protein_930922..931152_POSITIVE 293 330 281 221 175 pint:PI0229|5end_hypothetical_protein_228146..228376_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 307 262 128 80 pint:PI0375|3end_hypothetical_protein_346082..346232_POSITIVE 326 180 131 110 60 pint:PI1723|3end_conserved_hypothetical_protein_1642133..1642283_POSITIVE 321 298 255 79 28 pint:PI0252|3end_conserved_hypothetical_protein_248383..248533_POSITIVE 317 319 274 62 16 pint:PI1412|3end_HD_superfamily_hydrolase_1333823..1333973_POSITIVE 314 270 224 140 95 pint:PI0936|3end_conserved_hypothetical_protein_869464..869614_POSITIVE 312 187 148 73 16 pint:PI0354|3end_hypothetical_protein_326241..326391_POSITIVE 307 180 131 118 75 pint:PI1784|3end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1717195..1717345_POSITIVE 304 50 1 65 17 pint:PI0371|3end_thymidylate_synthase_341973..342123_POSITIVE 301 159 111 66 15 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 300 340 291 151 100 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 292 139 91 131 83 pint:PI1619|3end_two-component_system_response_regulator_1544018..1544168_POSITIVE 285 258 215 46 10 pint:PI1778|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1711399..1711549_POSITIVE 284 262 221 149 105 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 276 178 132 151 98 pint:PI1891|3end_hypothetical_protein_1835917..1836067_POSITIVE 276 177 131 72 30 pint:PI0556|3end_saccharopine_dehydrogenase_506160..506310_POSITIVE 275 158 118 79 30 pint:PI0539|3end_hypothetical_protein_493728..493878_POSITIVE 273 273 241 150 118 pint:PI1334|3end_ferrodoxin_1252875..1253025_POSITIVE 273 109 62 79 16 pint:PI0279|3end_hypothetical_protein_266081..266231_POSITIVE 272 301 268 138 102 pint:PI0772|3end_conserved_hypothetical_protein_708481..708631_POSITIVE 270 330 281 130 66 pint:PI1057|3end_hypothetical_protein_977548..977698_POSITIVE