Array 1 1-212 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000115.1 Trueperella pyogenes MS249 MS249_contig115, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 29 100.0 33 ............................. AGGCGCTCAACACGGCCCAGTTGGCGACGTTTG 62 29 93.1 32 .........A..................G GCGGGATCTACGCTAATGGCGAGTATGGTCTT 123 29 100.0 32 ............................. TCGTGACCGCGATGGGCGGCCTCGCCGGTCTT 184 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 4 29 98.3 33 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : | # Right flank : | # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.60,-11.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 461-5 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000131.1 Trueperella pyogenes MS249 MS249_contig131, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 460 29 96.6 32 ............................G TGGGGCCAAGCTAATGGGGCTACACGCTATGC 399 29 100.0 32 ............................. CTTGAGCTGGATTGTCTCCCCCGCACGTACGT 338 29 100.0 32 ............................. CCGATTGGCTTAATCATTTCGGGCGTGGGTGC 277 29 100.0 32 ............................. ATTGATGTAGTTTGTATACGGTGCGTCTATTA 216 29 96.6 32 ............................T GTATGGGAGCGCGTCAGTCTTGAAGCGGTCGG 155 29 100.0 32 ............................. GCCCCGTGGGGTCGTTGGAGCGGTACCCGAAA 94 29 96.6 32 ............................G CGGCCACAGCATCAGCGGTCGAGCCACCAAAA 33 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 98.7 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : TT # Right flank : CAGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-11.70,-13.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [1.7-5.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 278-5 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000133.1 Trueperella pyogenes MS249 MS249_contig133, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 277 29 100.0 32 ............................. TCGTGACCGCGATGGGCGGCCTCGCCGGTCTT 216 29 100.0 32 ............................. TCTAACTTCTCCTCTAATCAAGTCTCGGTCAC 155 29 96.6 32 ............................G AACTGCCCCCACACCTGACTATCGGGTGTGGG 94 29 96.6 32 ............................G CATATGGGCTAACGCCGTGGCAAGAACCAGCA 33 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : TCT # Right flank : CGAAC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-11.70,-13.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [3.3-5.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5-338 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000106.1 Trueperella pyogenes MS249 MS249_contig106, whole genome shotgun sequence Array_Orientation: Unconfirmed Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 ............................. CGTGATGGTGCGCTGGGTGAAGTTGCCTCGGC 66 29 100.0 32 ............................. ACGTACTTCGCTATCCTTGTAAGCGAAGGGGA 127 29 100.0 32 ............................. CTTCCCGGCCATAATATCCTCCGCGAAAATCT 188 29 100.0 32 ............................. GGTGGAGGGCCGTCAGGAGCTGACCGCGCAGG 249 29 100.0 32 ............................. CCGGAGCACCATCCCTGCCCGGCTCACCAGGA 310 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 CTTTTCCCCGCGCGAGCGGGGGTAATTCC # Left flank : GTGAC # Right flank : GATC # Questionable array : NO Score: 3.26 # Score Detail : 1:0, 2:0, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : CTTTTCCCCGCGCGAGCGGGGGTAATTCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,7] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-13.80,-12.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [3.3-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: NA [0.37,0.37 Confidence: NA] # Array family : NA // Array 1 275-2 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000135.1 Trueperella pyogenes MS249 MS249_contig135, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 274 29 96.6 32 ............................G CATATGGGCTAACGCCGTGGCAAGAACCAGCA 213 29 100.0 32 ............................. GAACTCCATGTAGGCTTCGCGGGCGGCGCCGT 152 29 100.0 32 ............................. AAACTAGCCCGCCGAACAGGCGGGCTTTCTTA 91 29 96.6 32 ............................G TGGGGCCAAGCTAATGGGGCTACACGCTATGC 30 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : | # Right flank : CC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-11.70,-13.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 4-215 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000142.1 Trueperella pyogenes MS249 MS249_contig142, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 4 29 96.6 32 ............................G TGGGGCCAAGCTAATGGGGCTACACGCTATGC 65 29 100.0 32 ............................. CCGATTGGCTTAATCATTTCGGGCGTGGGTGC 126 29 96.6 32 ............................G CGGCCACAGCATCAGCGGTCGAGCCACCAAAA 187 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : TTAG # Right flank : AGGC # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.60,-11.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [5.0-1.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 18676-22853 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000022.1 Trueperella pyogenes MS249 MS249_contig22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18676 29 100.0 32 ............................. TCCAAGAGCTACCCTATGCGGATCGTGAAGCG 18737 29 100.0 32 ............................. CCTTAAGGCGGTCGCTAAATTCGCATCGTCCG 18798 29 100.0 32 ............................. AATTTTGGCAAGATTAGGGGGTCTAAAAAGTT 18859 29 100.0 33 ............................. AATTTTGGCAAGATTAGGGGGTCTAAAAAGTTA 18921 29 96.6 32 ............................G GGGGTACCGATTCGTGACACCCCTCGAACCAC 18982 29 96.6 32 ............................T AAACTACAGATTAATCAAATGCTCGAGAGAGA 19043 29 96.6 32 ............................G TCTCGAGGTTGAGCCACTGCTTGAACTCGCAG 19104 29 100.0 32 ............................. GAAGGCCCGGCATCGCCGCAGAAATGTCATCG 19165 29 96.6 32 ............................G CAGCACACAAGGCACTCAAAAAACACAACCAG 19226 29 100.0 32 ............................. AACTGGCGGGGAGAAAATGGCATCATGACCGC 19287 29 96.6 32 ............................G GACATGCCGCATGAATAAAGAAACGTTCCGCC 19348 29 100.0 32 ............................. CGTCCGCCACGGTCGATGAACTGGTACCCGGT 19409 29 100.0 32 ............................. CATCCTGGGAGACAACAGCACCGTGAGCGGCA 19470 29 100.0 32 ............................. TTGCCCACCGAAACGACCGTGACCGCGCTCGA 19531 29 96.6 32 ............................G AAGACCGATGAGCGCATAGCCACGCTCAAACC 19592 29 100.0 32 ............................. TCGTCGCCACTGCCACCACCATGACTATGGGT 19653 29 100.0 32 ............................. GGTCGAATTGAGCCGGTCGCTGAGCTCCCCAC 19714 29 100.0 32 ............................. GGTCAGAAAGGACCACAACAATGCATACCACT 19775 29 100.0 32 ............................. TTATCATTCGCAATGAGAAGGTCAGGGGTTCG 19836 29 96.6 32 ............................G TCATTGAGGGCGATCACCTCGATCATGAGCGC 19897 29 96.6 32 ............................G GGGGCGCGGGCATGGGGGCCGCTCTGAGATCA 19958 29 96.6 32 ............................G TGCGACCAGGGCAATCGGCCCAGTGCTCGCAC 20019 29 100.0 32 ............................. TCGAATTTCGCATCTAATCAGGTCTCTATAAC 20080 29 100.0 32 ............................. GAGCTGCAAGAGGAGCGGGAGAAAGCGAACGC 20141 29 96.6 32 ............................G GCGAGACCGTGACGTGGCGGGGTAAGCAGTAC 20202 29 96.6 32 ............................G CGGCCATAAACCGCACATGGACTAGGCTTGGT 20263 29 96.6 32 ............................G TCCGGGGCGACAAAGTCGCCTGAGTTGAGGCG 20324 29 100.0 32 ............................. CGACCGGTTTACTGGATTGGCTCGAAGAATTC 20385 29 96.6 32 ............................G ATGATGGGGGATGAGGATTTTCAGCAGGTGTA 20446 29 100.0 32 ............................. AATTGACACGACGACACGGCCAGAATCAAAAC 20507 29 100.0 32 ............................. GCGGTCGCAATACCGAGGATATCGCCCTCAGA 20568 29 100.0 32 ............................. GTGACCACGCAAGACATGTTGGCCGTCATGGA 20629 29 96.6 32 ............................G GATTCGGTGTAGAGCATGGAGCGAAATTCTCG 20690 29 100.0 32 ............................. CCAGCGCATCACGAATCAACGCCAGCGGCCGC 20751 29 100.0 32 ............................. CAGCAGCTGATCCGCATGCTGCAGCTCGCCGA 20812 29 100.0 32 ............................. AAAGAACCGGCAACCCTCACGACCCCACTCGA 20873 29 100.0 32 ............................. ACCTCGCGCGATGACAGTGCCTGATTACTGAC 20934 29 100.0 32 ............................. TTTTCCGTTAACGTGTTATTACGCCCAGTTTC 20995 29 96.6 32 ............................G GGCTGCGTCTGGTTAAGCAGCAGATTTCTGGT 21056 29 96.6 32 ............................G CCCCCGATTTATGAGGGGCCGGTCAAAAGCAG 21117 29 100.0 32 ............................. TTGGCGCTTGACGCCACACGGACGCCACCACG 21178 29 100.0 32 ............................. CGATTCCGCCTCCACCGTCACGGTCAGGAACT 21239 29 100.0 32 ............................. CGAACTGTGCAAGGTCGGCGAAGGGCAGGCTT 21300 29 100.0 32 ............................. GGTGGTTGCGAGGCATTTAGGCTTGACCACTG 21361 29 100.0 32 ............................. CCGCGGTCATCTTCCTCAGCAGAGAGGACCGC 21422 29 100.0 32 ............................. CTTGGAGGCGTCCATCGTCCCATCCAGGATGG 21483 29 100.0 32 ............................. ACGGTGGGGATCGCGGAAGATCTCGGGGTGCC 21544 29 100.0 32 ............................. CGTCGTTCTTCCAAATCGTGAAGGCCGTCCTA 21605 29 96.6 32 ............................T GAAAGCGCGTTTAATTAGGGCGCTATTGCTTG 21666 29 96.6 32 ............................G AGCTGAAAAAGATCGCCGAAGCGTGGCAAATG 21727 29 100.0 32 ............................. AACCCCCGATACCGGACGGGCTATCGTGCGTG 21788 29 100.0 32 ............................. AACCCCCGATACCGGACGGGCTATCGTGCGTG 21849 29 100.0 32 ............................. AGTCAAGCCAGATCGTGGCGGTGGGGTGATGG 21910 29 100.0 32 ............................. AGTCAAGCCAGATCGTGGCGGTGGGGTGATGG 21971 29 96.6 32 ............................G AGCCGCCGCCATTTGATCGGCGTCAATATGGA 22032 29 96.6 32 ............................G GAAACCCGCGCGCTCCTGCAGACTACCCGCGA 22093 29 100.0 32 ............................. AAAAGACTCTGCCAAGGACTGCTCGTTAATCG 22154 29 100.0 32 ............................. GAAGCATACAAAGAGAACACTGCTTTGACGAA 22215 29 100.0 32 ............................. AAACTAGCCCGCCGAACAGGCGGGCTTTCTTA 22276 29 96.6 32 ............................G CTATATTGATTGTGGTCAGACATCTGCCCCGC 22337 29 96.6 32 ............................G TATCCACCTTTCCTCATGACACTTGCCCCTGA 22398 29 100.0 32 ............................. GCCCCTACCATTGGGGCGATCAGCGGGATGAC 22459 29 100.0 32 ............................. TTGGCCCCCATCTGCACACTCTCCTCATTGAT 22520 29 100.0 32 ............................. ACGGGAGCAACAGATACAGCCGCGCCGCCCTA 22581 29 100.0 32 ............................. ACTCGTCCCGCCTTGACGCCGACCTCTAGGGC 22642 29 100.0 32 ............................. ACTTCCAGCGCGTGGTTTAGCTCTTCAACTAG 22703 29 96.6 32 ............................T CATTCAGCAGGTGGTGGCGAACGCGTTTGTGT 22764 29 96.6 32 ............................G CATATGGGCTAACGCCGTGGCAAGAACCAGCA 22825 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 69 29 98.8 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : CCGCGGTACCTGCAGGTCTGCGGGGCGACCTCACGAAATGGCTTATGGAGATCGCACCAGGAGTGTTTGTGGGGACTCCAAGCGCGCGGATACGGGAGCAGATCTGGGCACGTACCGTCGCACTTTGTAAAGACGGCCGGGCAATCATGGTCTGCTCCGCGGATAACGAGCAGGGAATGACGTTTCGAACCCATCGACACGATTGGGAACCCACAGACTTTGATGGTTTGACCTTAATGATTCGGCCAGATGGTGGACAGAATTCTCAGAACAATCAGCGAAGAACGGGATGGTCGGACGCTAGGCATCTACGCAAAAAGTATTGATAACGACTGAACTGTTTGGGTGTCCAGATTTTTGATAGTTCGAGAATTGTGGATTACGCGCGATGGTAGTGGATAGAGTGGATCCTGAGATATCCATTGGGCCATCGTCAGGTAGGGCGCAATAAGTTAAATGTATAATCGAAGTGCTGGCGGCAGAAGTGCTGGTCAGCAACT # Right flank : GAAC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.60,-11.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [51.7-3.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-1859 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000003.1 Trueperella pyogenes MS249 MS249_contig3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. CCGGAGCACCATCCCTGCCCGGCTCACCAGGA 62 29 100.0 32 ............................. GATCATTCAGCGTCAACGCGACCTTGATCCCG 123 29 100.0 32 ............................. AAAATGCCATCAGAGATGCAGGCAGGAAGGCG 184 29 100.0 32 ............................. GTTCTCGACCAAAAGGTCACCGGGGAGTAAAG 245 29 100.0 32 ............................. TACCGCCAAATCACGATCGGTGGCCGCGATAT 306 29 96.6 32 ............................T CCGCACACCCGGCCCCTCAAAAGCCGCATCCG 367 29 100.0 32 ............................. ATAGACACCGAATCGCCCGAGTGGGAGGATTT 428 29 100.0 32 ............................. AGGTCAGCCCACGCCTTCATGATACGCGTGAC 489 29 100.0 32 ............................. ATCACCCAGATCGCCGGCGTCTTCGGGCTACG 550 29 100.0 32 ............................. GGTCATGAAGACAAGCGCGGCGAAGGCTCCCG 611 29 100.0 32 ............................. TGCCCAGAAGGGAAGCCCGTGTATTTTGTTGG 672 29 96.6 32 ............................T GTGAAAAGACGACTCATGCCGCCACCTCCTTA 733 29 100.0 32 ............................. CATCAAGCCATTCGTTTGGCACGCCGTCCGCT 794 29 100.0 32 ............................. GTTTTGTGTCGATTTTGCCCGGTTGACCTACC 855 29 100.0 32 ............................. CCCACTTGCTAGAATGTGACGAGGGTAACATT 916 29 100.0 32 ............................. AACCTTCCCACCATCATCACCCGTGACCACCA 977 29 100.0 32 ............................. GATCAGCCCGCCACCATGATGGTCAGCAAGCT 1038 29 100.0 32 ............................. ATCACCCGGGATGGGGTGAACCTGCAAATGTG 1099 29 100.0 32 ............................. GCCCCTAAGGTCCTCTTCGCGGACAGTGTAGC 1160 29 100.0 32 ............................. CTGCCTAGCCCCGTTAGTCCCGTAGGGGGCAT 1221 29 100.0 32 ............................. AGTCCGGCAATGATACGGATCGTGGTTTTCAT 1282 29 100.0 32 ............................. GTCGATCTGGTCAAACACGGCCTCCAGACCGC 1343 29 100.0 32 ............................. TAATTTTACGCGCCCACGGCGCACCGCTCGAA 1404 29 100.0 32 ............................. GTACTCACCATTGGAGAGCCAGGAGAGGATTG 1465 29 100.0 32 ............................. GCTGCTGGACGGGCTAGCGCAGCTGCCGGAAA 1526 29 100.0 32 ............................. TGGAAAGGCCCGAAGCCGCTCGATCGTGTCCT 1587 29 100.0 32 ............................. GCCATGGGCGGGCTAGCCGGTCTCGCGGCGCT 1648 29 100.0 32 ............................. CAGCCTCTCCCTTGGGGAGCTGCACAGTCTCC 1709 29 100.0 32 ............................. CGGAGGTACTTCATTTCAGCGACATTGGAACG 1770 29 100.0 32 ............................. TCCTACGATGCGGTAAATGTGATACTGAAAGG 1831 29 82.8 0 .....................AG...CTG | ========== ====== ====== ====== ============================= ================================ ================== 31 29 99.2 32 CTTTTCCCCGCGCGAGCGGGGGTAATTCC # Left flank : | # Right flank : GATAGTTCGAGTTGCGAGAAACAGGTAAGAGTTGATTCGAAAAGTATCTGAAATGGCCAGCCTTATCGTTTAACAGCACGGCACCACAGATCACTGATACACCACGCTAACGGAGGCCAGCACTGTGCGGCCGCCCCGCTCGGCACTGCCGCCGCGTTATCATGAAGTATGGATTTTTCTGAAGTATTGCGCTCAAGAGTCAGTGTTCGCGCCTATCTGGATAAGCCGGTGGAGCCGGATGTTTTGGCTGCGGTGCTAGACGATGCTCGGCATTGCCCGTCGTGGTCTAACGCGCGGGGTTATCTCCTTGCGCTGGCACAGGGGGAGCGTTTGGCGCGTCTCAAAGAGGCCTATGTGGAGGCATGGACCCGGTCGTTGTCGGGTGAGTTTCCGCCGACCGATTTTAATACCCGCATGCGCTATCCCGGAGAGTTGCGTGATCGGCAGGTTGCCAACGGTAAGCGCTACTATGCACACCTTGGAGTCGCCCGCGGTGACCG # Questionable array : NO Score: 3.22 # Score Detail : 1:0, 2:0, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : CTTTTCCCCGCGCGAGCGGGGGTAATTCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,7] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-13.80,-12.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0.37 Confidence: MEDIUM] # Array family : NA // Array 1 1-456 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000030.1 Trueperella pyogenes MS249 MS249_contig30, whole genome shotgun sequence Array_Orientation: Unconfirmed Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. GCCGAGGCAACTTCACCCAGCGCACCATCACG 62 29 100.0 32 ............................. TCACATCAAGAACACCTGTAGCATCCAGCCCA 123 29 100.0 32 ............................. TCGGGAAAACGCTGTATTACCGAGCAAAATCC 184 29 100.0 32 ............................. CGAGAACCGGCCTCCAGCTCGGACGCGATCAT 245 29 100.0 32 ............................. GGAGGGAACTTATATGAGGATCAGGACGATTA 306 29 100.0 32 ............................. CGAGCAAAATCCGTCACCACCAACGGCATCGA 367 29 100.0 32 ............................. CCATCCACCCCTTCGGATACCGCTCCAGCGAC 428 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GGAATTACCCCCGCTCGCGCGGGGAAAAG # Left flank : | # Right flank : GACTATCCCACCTGTAGATTTATCGGATCAGACCCTCGTTTTCCACGAAAACCTGGTCCAGAGTTTCAGCCTCACGGGGCTGCGCTTCTTCAATAGCGCAGCCCCGCGACACCATCGCACTCAGAAGGAGTCCGTCCATGTCGATGATCTTACGTGATGTCCTCCCAAGGGTCTCTACGACAAAGCCTTGCTCCGTCTCCGCACTACTACTGATAACAACGATCTTGCCGTCGTCAACAGCCTGGTGGCAGCGGCCAACGAGGTTGTCGCGCACAACGGGCGAAACCTTCCCAACGAATACCCCCGCATCAACTTCCGACAGGAATCGACCAATGTAGCCGTGGAGGTGTTCGGGAATCGCCGTCGTCACAATGGCAACGAACATTATTTCACCCCATATTGCGTATGGCCCGCGACTTCGTGGTTGCGGCCCCCAATGAGCCGGTCGTCGTCACGATCAGGAAGATGCGGCGAGAGAATCTCCATCAATGTACTGAGCA # Questionable array : NO Score: 3.26 # Score Detail : 1:0, 2:0, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GGAATTACCCCCGCTCGCGCGGGGAAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [7,3] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-12.20,-13.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: NA [0.37,0.37 Confidence: NA] # Array family : NA // Array 1 5-279 **** Predicted by CRISPRDetect 2.4 *** >NZ_JALQ01000062.1 Trueperella pyogenes MS249 MS249_contig62, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5 29 100.0 32 ............................. TCGTGACCGCGATGGGCGGCCTCGCCGGTCTT 66 29 100.0 32 ............................. CGTACTGTTTTGACGGCATACCGTTTCGATCC 127 29 96.6 33 ............................A CATTCGCGCACTAGCGGCGTGGCAAGGTGTGAC 189 29 93.1 32 .......T....................G GGTTCCCGATGGTGTGATCATGCCCGGAATGG 250 29 89.7 0 .......T..................T.A | C [275] ========== ====== ====== ====== ============================= ================================= ================== 5 29 95.9 32 GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Left flank : TCTTG # Right flank : AGTGACGGTTGGAAAGTAGCCCAGTAGTTGCGTCGTTGATTTTGAGAATCACACGCAAAATGCGAGACTGCACTTCTTCTAAAACCTGCAAACTCGTACACGGCGTCGCGTCCTCCTCGGGTGCCCTCACAATCGCCAGGCACCAAATCAAGTAGGCCATTGTCAGCTACTAGGAATCTGACAAACGAGAATCAACATCCATATGACGCTGGAGAATTCGTACGACTACCACGGCGTCGTCTTCGCACCGATAGAAGATAACGTGTTGACTGCCTGTCAGGCTGCGGCACGCTGATTCAAGTTCTTTGCGGAGGCGGTCGCGCAGAGGAAAATCTGTCAAGCTCTCTAAGCTAGTCTGGAGTTCTCGCAGATACAGCTCCGCCTGGCGGGGTCCCCATTTTCTTCCGTATGATCCCTGATATTTGACAGATCAACCTTGGCTAGTGGTGAGAAAGCGAGTTTCACTGGTGCTGCTTTTCTATGATGAATTGGTCAAAGTC # Questionable array : NO Score: 5.78 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGGTCCCCGCGCAGGCGGGGATGAGCCC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGGTCCCCGCGCAGGCGGGGATGAGCCC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.60,-11.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [5.0-53.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //