Origin IGS: taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagaaaaaccccgcacttcgacaactaattttatcttttgattttcaatatgtcaaagaacttttgtcagcgattttctccttttttcgagacgaaaaaaggagaaagacaattttta Mask Tandem Repeat Region ================================================ taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Find is-nt database================================================ Query_seq: TF0170:TF0171|TF0170:TF0171:possible CRISPR-associated protein Cas2:hypothetical protein:->->:179967..180085 119 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0170:TF0171|TF0170:TF0171:possible CRISPR-associated protein Cas2:hypothetical protein:->->:179967..180085 119 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0170:TF0171|TF0170:TF0171:possible CRISPR-associated protein Cas2:hypothetical protein:->->:179967..180085 119 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 2 End: 91 . F I T K R R K E D R F F S F I A S L L E K V Y Q F D F S L M ............................ taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta 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: 89 Start: 62 End: 91 .............................................................TTTGACATATTGAAAATCAAAAGATAAAAT............................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0170:TF0171|TF0170:TF0171:possible CRISPR-associated protein Cas2:hypothetical protein:->->:179967..180085 119 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: tfor_TF0170_TF0171|possible CRISPR-associated protein Cas2:hypothetical protein|POSITIVE:POSITIVE|[179967,180085]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta taaaaattgtctttctccttttttcgtctcgaaaaaaggagaaaatcgctgacaaaagttctttgacatattgaaaatcaaaagataaaattagttgtcgaagtgcggggtttttctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAUUGUCUUUCUCCUUUUUUCGUCUCGAAAAAAGGAGAAAAUCGCUGACAAAAGUUCUUUGACAUAUUGAAAAUCAAAAGAUAAAAUUAGUUGUCGAAGUGCGGGGUUUUUCUUA ......((((((((((((((((((((...)))))))))))))))......)))))..((.((((((((.(((((..(((....)))....))))))))))))).))............. (-33.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAAAACCCCGCACUUCGACAACUAAUUUUAUCUUUUGAUUUUCAAUAUGUCAAAGAACUUUUGUCAGCGAUUUUCUCCUUUUUUCGAGACGAAAAAAGGAGAAAGACAAUUUUUA ...(((((....(((.(((.((((.........(((....)))........)))).))).((....))..))).((((((((((((((((...))))))))))))))))....))))). (-27.13) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 271 65 26 84 43 tfor:TF1927|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2075037..2075267_POSITIVE 269 74 34 202 163 tfor:TF1578|5end_hypothetical_protein_1686187..1686417_POSITIVE 251 53 11 204 165 tfor:TF2852|5end_conserved_hypothetical_protein_3038966..3039196_POSITIVE 251 53 11 70 31 tfor:TF0336|5end_Xaa-Pro_aminopeptidase_360613..360843_POSITIVE 248 49 8 115 70 tfor:TF3027|5end_zinc_metalloprotease_3250223..3250453_POSITIVE 245 49 8 205 165 tfor:TF2861|5end_conserved_hypothetical_protein;_possible_Rhs_family_protein_3051738..3051968_POSITIVE 244 66 22 87 46 tfor:TF0409|5end_conserved_hypothetical_protein_426240..426470_POSITIVE 243 51 11 85 42 tfor:TF0886|5end_conjugative_transposon_protein_fragment_937914..938144_POSITIVE 241 64 24 109 60 tfor:TF1684|5end_zinc_protease_1797396..1797626_POSITIVE 241 74 35 202 164 tfor:TF1579|5end_hypothetical_protein_1686889..1687119_POSITIVE 240 75 35 181 139 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 233 53 14 154 115 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 233 53 14 148 109 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 233 53 14 148 109 tfor:TF2171|5end_hypothetical_protein_2345485..2345715_POSITIVE 233 53 14 148 109 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 233 53 14 148 109 tfor:TF0366|5end_hypothetical_protein_383564..383794_POSITIVE 233 53 14 148 109 tfor:TF0362|5end_hypothetical_protein_379952..380182_POSITIVE 233 53 14 148 109 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 229 53 14 148 109 tfor:TF0346|5end_hypothetical_protein_367048..367278_POSITIVE 228 58 11 53 4 tfor:TF1297|5end_hypothetical_protein_1379024..1379254_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 44 7 79 36 tfor:TF0170|3end_possible_CRISPR-associated_protein_Cas2_179906..180056_POSITIVE 271 65 26 68 27 tfor:TF1925|3end_hypothetical_protein_2075101..2075251_POSITIVE 269 74 34 70 31 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 263 48 8 81 44 tfor:TF0436|3end_conserved_hyothetical_protein_460828..460978_POSITIVE 251 54 15 134 96 tfor:TF2924|3end_DNA-binding_response_regulator/sensor_histidine_kinase_3125618..3125768_POSITIVE 251 53 11 88 49 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE 248 49 8 66 21 tfor:TF3026|3end_conserved_hypothetical_protein_3250254..3250404_POSITIVE 245 49 8 67 27 tfor:TF2860|3end_hypothetical_protein_3051680..3051830_POSITIVE 244 66 22 91 50 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 243 51 11 146 103 tfor:TF0885|3end_conjugative_transposon_protein_fragment_938055..938205_POSITIVE 240 75 35 148 106 tfor:TF2994|3end_hypothetical_protein_3210849..3210999_POSITIVE 233 53 14 44 5 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 231 62 22 149 110 tfor:TF0017|3end_hypothetical_protein_11231..11381_POSITIVE 229 65 23 69 24 tfor:TF0525|3end_conserved_hypothetical_protein_549584..549734_POSITIVE 224 60 16 52 4 tfor:TF2008|3end_DNA_polymerase_I_2162183..2162333_POSITIVE 224 60 18 118 83 tfor:TF0226|3end_hypothetical_protein_253847..253997_POSITIVE 220 60 15 83 41 tfor:TF0216|3end_50S_ribosomal_protein_L20_242900..243050_POSITIVE 217 53 11 83 19 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 217 31 3 130 109 tfor:TF0156|3end_conserved_hypothetical_protein_166591..166741_POSITIVE 216 109 92 39 16 tfor:TF2246|3end_hypothetical_protein_2421550..2421700_POSITIVE