Array 1 44875-45940 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAP01000049.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_3272_R1 NODE_39_length_45991_cov_1.34429_ID_77, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 44875 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 44936 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 44997 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 45058 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 45119 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 45180 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 45241 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 45302 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 45363 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 45424 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 45485 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 45546 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 45607 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45668 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45729 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45790 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45851 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45912 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : AATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 107049-106409 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAP01000132.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_3272_R1 NODE_12_length_123683_cov_1.35718_ID_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 107048 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 106987 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106926 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106865 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106804 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106743 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106682 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106621 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106560 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106499 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106438 29 96.6 0 A............................ | A [106411] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 123636-123181 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAP01000132.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_3272_R1 NODE_12_length_123683_cov_1.35718_ID_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 123635 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 123574 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 123513 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 123452 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 123391 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 123330 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123269 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123208 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 96.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.98, # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //