Origin IGS: gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgaagtcaaaattacgcgtttcgtcagacataatgtactgacaaatcggttgttcggtgcaaattacctacagatgaggattctacactatggttagatgcataattcggtacaagtatgttaaaaaaaataccttacttaagaggactcaaaaagtcgcgcgtaaaatatttttttcctgcgtcggaaaggaaaaattttcaaaccaaaatgaaaactttgtggcgtgagatttttcagattctcgttccattatttctgagattgcggttcgctttttctgaaagaatggccgaggtcggattatgctctgctctatattaaaaaacgaaaaggctgttctgttcacttcagatataatattctttgcccaagtgaaggaaacgttgctaaaaaggcatagcgatcagtgatgacaggcggtcaaaaatgaaaaggaattttttccaagtggcgatacaaaatacctacttttgtacctgaattactccgtgaaaatacccgattc Mask Tandem Repeat Region ================================================ gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Find is-nt database================================================ Query_seq: PG2004:PG2006|PG2004:PG2006:hypothetical protein:hypothetical protein:<-->:2094218..2094726 509 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2004:PG2006|PG2004:PG2006:hypothetical protein:hypothetical protein:<-->:2094218..2094726 509 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2004:PG2006|PG2004:PG2006:hypothetical protein:hypothetical protein:<-->:2094218..2094726 509 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 148 End: 357 ................................................................................................................................................... M I S E V N R T A F S F F N I E Q S I I R P R P F F Q K K R T A I S E I M E R E S E K S H A T K F S F W F E N F S F P T ........................................................................................................................................................ Protein_Len: 33 Strand: + Start: 269 End: 367 ............................................................................................................................................................................................................................................................................ M K N L T P Q S F H F G L K I F P F R R R K K I F Y A R L F E S S .............................................................................................................................................. Protein_Len: 35 Strand: + Start: 378 End: 482 ......................................................................................................................................................................................................................................................................................................................................................................................... M F F N I L V P N Y A S N H S V E S S S V G N L H R T T D L S V H Y V ........................... Protein_Len: 46 Strand: - Start: 282 End: 419 ......................................................................................................................................................................................................................................................................................... A V F N E N Q N S F K E K G V C S F F I K R A V K Q T R K L L T N K K V Y K Y R I I C R V M .......................................................................................... Protein_Len: 60 Strand: - Start: 188 End: 391 ........................................................................................................................................................................................... E A M R E S F A F R L R L F L P V L I Q F I E R W L T K M K T Q F N K R E S A P F F Y K V R S K K L G R L Y P I K K L M ...................................................................................................................... Protein_Len: 40 Strand: - Start: 109 End: 228 ............................................................................................................ A K K A V N G E S P C L I N Y R F H V S C G K R K K I Y L L A Y D S R P W E K M ......................................................................................................................................................................................................................................................................................... Protein_Len: 36 Strand: - Start: 99 End: 206 .................................................................................................. Q D S H R K L L T E K V Q A F F I I D S T F L V A K E N K L I S C L M M ............................................................................................................................................................................................................................................................................................................... gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa 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================================================ gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -4.4 Tail_Score: -4.77757 Start: 61 End: 72 Full_Region: TTTGTATCGCCACTT GGAA AAAA TTCC TTTTCATTTTTGACC ............................................................GGAAAAAATTCC..................................................................................................................................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PG2004:PG2006|PG2004:PG2006:hypothetical protein:hypothetical protein:<-->:2094218..2094726 509 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Intra-Species Hit: Count: 1 Min: 1 Max: 509 Len: 509 Subject: NC_002950_PG2004_PG2006|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2094218,2094726]|509 HSP 1 e-value: 0.0 bit: 920.0 Len: 509 Query Start:1 Query End:509 Subject Strand: POSITIVE Subject Start: 1 Subject End: 509 gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggnnnnnnntattttacgcgcgactttttgagtcctcttaagtaaggtannnnnnnnaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa gaatcgggtattttcacggagtaattcaggtacaaaagtaggtattttgtatcgccacttggaaaaaattccttttcatttttgaccgcctgtcatcactgatcgctatgcctttttagcaacgtttccttcacttgggcaaagaatattatatctgaagtgaacagaacagccttttcgttttttaatatagagcagagcataatccgacctcggccattctttcagaaaaagcgaaccgcaatctcagaaataatggaacgagaatctgaaaaatctcacgccacaaagttttcattttggtttgaaaatttttcctttccgacgcaggaaaaaaatattttacgcgcgactttttgagtcctcttaagtaaggtattttttttaacatacttgtaccgaattatgcatctaaccatagtgtagaatcctcatctgtaggtaatttgcaccgaacaaccgatttgtcagtacattatgtctgacgaaacgcgtaattttgacttcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUCGGGUAUUUUCACGGAGUAAUUCAGGUACAAAAGUAGGUAUUUUGUAUCGCCACUUGGAAAAAAUUCCUUUUCAUUUUUGACCGCCUGUCAUCACUGAUCGCUAUGCCUUUUUAGCAACGUUUCCUUCACUUGGGCAAAGAAUAUUAUAUCUGAAGUGAACAGAACAGCCUUUUCGUUUUUUAAUAUAGAGCAGAGCAUAAUCCGACCUCGGCCAUUCUUUCAGAAAAAGCGAACCGCAAUCUCAGAAAUAAUGGAACGAGAAUCUGAAAAAUCUCACGCCACAAAGUUUUCAUUUUGGUUUGAAAAUUUUUCCUUUCCGACGCAGGAAAAAAAUAUUUUACGCGCGACUUUUUGAGUCCUCUUAAGUAAGGUAUUUUUUUUAACAUACUUGUACCGAAUUAUGCAUCUAACCAUAGUGUAGAAUCCUCAUCUGUAGGUAAUUUGCACCGAACAACCGAUUUGUCAGUACAUUAUGUCUGACGAAACGCGUAAUUUUGACUUCAA ((((((((........(((.(((((((.((((((..((((.((..........((...(((((((..(((((.(((((((..((((.....))))...((((..((((........))))...((((..(((((((.((...............)).)))))))..)))).((...((((((((((.....(((((.(((...........))).))...))).....))))))))))..))....))))....))))))).).))))..(((((((.(((.((((.(((.......))))))).)))..))))))).))))))).))..((((((((((((((((....(((((...))))).......)))))))))))))))).)).)))))))))))))))))(((....(((((((((.((....)))).)))).)))....))).)))....((((.((((((((.((.....)))))))))).)).))...))))).))).. (-118.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGAAGUCAAAAUUACGCGUUUCGUCAGACAUAAUGUACUGACAAAUCGGUUGUUCGGUGCAAAUUACCUACAGAUGAGGAUUCUACACUAUGGUUAGAUGCAUAAUUCGGUACAAGUAUGUUAAAAAAAAUACCUUACUUAAGAGGACUCAAAAAGUCGCGCGUAAAAUAUUUUUUUCCUGCGUCGGAAAGGAAAAAUUUUCAAACCAAAAUGAAAACUUUGUGGCGUGAGAUUUUUCAGAUUCUCGUUCCAUUAUUUCUGAGAUUGCGGUUCGCUUUUUCUGAAAGAAUGGCCGAGGUCGGAUUAUGCUCUGCUCUAUAUUAAAAAACGAAAAGGCUGUUCUGUUCACUUCAGAUAUAAUAUUCUUUGCCCAAGUGAAGGAAACGUUGCUAAAAAGGCAUAGCGAUCAGUGAUGACAGGCGGUCAAAAAUGAAAAGGAAUUUUUUCCAAGUGGCGAUACAAAAUACCUACUUUUGUACCUGAAUUACUCCGUGAAAAUACCCGAUUC ...............((((....(((((((.....)).))))).....(((.((((((((((((...(((.(....))))...((((..(((((.((((.((((((((((..(((....)))..........(((((......(((((((.(((((.((((((........(((((((((......)))))))))...((((((........)))))).......))))))..))))).)).)))))...(((((.((((.((((..(((...)))..)))).)))).)))))..)))))))))))))))))))..)))))..............((((((.(((((((((............(((((..(....)..)))))...(((((((........))))))).)))))..))))))))))...........((((....))))..))))..................)))))))).)))).))).)))).............. (-127.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 949 130 81 221 172 NC_002950:PG2004|5end_hypothetical_protein_2094127..2094357_NEGATIVE 384 307 262 192 146 NC_002950:PG0132|5end_hypothetical_protein_152879..153109_POSITIVE 378 246 212 210 175 NC_002950:PG2063|5end_hypothetical_protein_2160596..2160826_NEGATIVE 370 130 86 123 75 NC_002950:PG0438|5end_hypothetical_protein_476884..477114_POSITIVE 337 129 87 186 144 NC_002950:PG2199|5end_ABC_transporter,_ATP-binding_protein,_putative_2306723..2306953_NEGATIVE 330 237 194 221 172 NC_002950:PG1253|5end_DNA_ligase,_NAD-dependent_1331606..1331836_NEGATIVE 327 440 396 204 151 NC_002950:PG1034|5end_ABC_transporter,_ATP-binding_protein_1096163..1096393_POSITIVE 326 240 195 209 166 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 325 226 190 159 114 NC_002950:PG1967|5end_TPR_domain_protein_2057168..2057398_POSITIVE 323 240 198 216 180 NC_002950:PG0703|5end_cobalamin_(5'-phosphate)_synthase,_putative_758144..758374_POSITIVE 320 250 206 121 60 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 318 240 192 180 117 NC_002950:PG2055|5end_dihydroorotate_dehydrogenase_2153060..2153290_NEGATIVE 317 50 1 215 174 NC_002950:PG2041|5end_hypothetical_protein_2139966..2140196_NEGATIVE 317 350 301 108 59 NC_002950:PG1617|5end_hypothetical_protein_1697755..1697985_NEGATIVE 312 471 432 230 185 NC_002950:PG0005|5end_hypothetical_protein_4951..5181_NEGATIVE 307 359 311 86 37 NC_002950:PG0313|5end_hypothetical_protein_347366..347596_POSITIVE 297 259 211 78 34 NC_002950:PG1798|5end_immunoreactive_46_kDa_antigen_PG99_1894245..1894475_NEGATIVE 297 110 71 104 69 NC_002950:PG1605|5end_aminopeptidase_C_1685179..1685409_POSITIVE 295 218 171 181 136 NC_002950:PG1743|5end_2-dehydro-3-deoxyphosphooctonate_aldolase_1828348..1828578_NEGATIVE 295 227 188 80 33 NC_002950:PG1426|5end_hypothetical_protein_1511310..1511540_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 317 50 1 82 41 NC_002950:PG2042|3end_thioredoxin_family_protein_2140099..2140249_NEGATIVE 313 216 171 100 42 NC_002950:PG0723|3end_hypothetical_protein_775355..775505_POSITIVE 307 140 95 139 90 NC_002950:PG1847|3end_endoribonuclease_L-PSP,_putative_1946227..1946377_NEGATIVE 301 488 441 69 9 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 297 465 421 132 75 NC_002950:PG1757|3end_hypothetical_protein_1843931..1844081_NEGATIVE 295 495 451 124 77 NC_002950:PG0842|3end_mobilizable_transposon,_hypothetical_protein,_putative_903810..903960_NEGATIVE 295 367 321 78 36 NC_002950:PG0337|3end_hypothetical_protein_371377..371527_NEGATIVE 293 128 87 150 111 NC_002950:PG1397|3end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1478829..1478979_NEGATIVE 292 267 223 49 5 NC_002950:PG1943|3end_hypothetical_protein_2028974..2029124_NEGATIVE 290 106 61 98 35 NC_002950:PG0069|3end_hypothetical_protein_82421..82571_NEGATIVE 287 240 194 145 95 NC_002950:PG0312|3end_hypothetical_protein_346509..346659_NEGATIVE 286 128 83 84 27 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 285 120 72 129 86 NC_002950:PG1285|3end_glucosamine-6-phosphate_deaminase_1364941..1365091_POSITIVE 285 113 71 151 101 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE 285 113 71 151 101 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 285 130 81 89 53 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 281 125 81 121 77 NC_002950:PG0770|3end_hypothetical_protein_824159..824309_NEGATIVE 281 218 177 64 19 NC_002950:PG0132|3end_hypothetical_protein_153054..153204_POSITIVE 281 139 91 147 102 NC_002950:PG0126|3end_type_I_phosphodiesterase/nucleotide_pyrophosphatase_family_protein_146783..146933_NEGATIVE 280 225 189 54 10 NC_002950:PG1313|3end_dipeptidase-related_protein_1394020..1394170_POSITIVE