Array 1 599-81 **** Predicted by CRISPRDetect 2.4 *** >NZ_DAANHR010000126.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 SAMEA788619-rid8104363.denovo.126, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 598 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 537 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 476 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 415 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 354 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 293 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 232 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 171 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 109 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 9 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATATTGTTGTTGGTGAATGGG # Right flank : GAATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATCGTGTTC # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [36.7-23.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 61974-61700 **** Predicted by CRISPRDetect 2.4 *** >NZ_DAANHR010000025.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 SAMEA788619-rid8104363.denovo.025, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 61973 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 61912 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 61851 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 61790 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 61729 29 96.6 0 A............................ | A [61702] ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGGGTATATGTGGAT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 : 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-15.0]%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], // Array 1 194-43 **** Predicted by CRISPRDetect 2.4 *** >NZ_DAANHR010000038.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 SAMEA788619-rid8104363.denovo.038, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 193 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 132 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 71 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGACTGTTTATACCGGATTCCATGCGTTTTCAGGTGTTCCCCG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: NA [5,5] 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 [-14.20,-15.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [35.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.14 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 17796-16120 **** Predicted by CRISPRDetect 2.4 *** >NZ_DAANHR010000071.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 SAMEA788619-rid8104363.denovo.071, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17795 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 17734 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 17673 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 17612 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 17551 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 17490 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 17429 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 17368 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 17307 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 17246 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17185 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17124 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17063 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17002 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 16941 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 16880 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 16819 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 16758 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 16697 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16635 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16574 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16513 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16452 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16391 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16330 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16269 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16208 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16147 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGACGCCCA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-5.0]%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], //