Array 1 1035-152 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLT01000030.1 Salmonella enterica subsp. enterica serovar Altendorf strain CFSAN059897 CFSAN059897_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1034 29 100.0 32 ............................. ATGCAGTCGCAAAATATTCTCTCGGCGAATAT 973 29 100.0 32 ............................. CGCCGGGCGCGGTGGAAGTTAAAGCAGATGGA 912 29 100.0 32 ............................. TGAACCGGGATTTCATCAGGTACCCGGTGAGG 851 29 100.0 32 ............................. AGAATCAGGATAAATCACTCTGTCAGCCGGGT 790 29 100.0 32 ............................. ATATCGCCGGGGTGAAATTCAGTGCGGAACGT 729 29 100.0 32 ............................. GGTCATACGGATTTATATCACACCGTGTAATA 668 29 100.0 32 ............................. GGGTTGGCTATTTCCGCAATCTTAAATGTAAT 607 29 100.0 32 ............................. CCGCCTTTATTGCTTCTCAGTATTATAATAAT 546 29 100.0 32 ............................. ACAATATCCCCCTGCATGGGTTTCTCAGCTTT 485 29 100.0 32 ............................. TATCCGCCTCACGTAATAATCAGCAGAATGAG 424 29 100.0 32 ............................. CTGATCACGTCTGCAATTCCGTCCATTTACGT 363 29 100.0 32 ............................. GATTCAGGTTACACTGGTGTTGAAATGGCTAT 302 29 100.0 32 ............................. TGCTTCCTCAGGTTACCATCCCGCTATTTGGT 241 29 100.0 32 ............................. TTATAACCGAACTGACAATTGAACCAGTAGAG 180 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 100.0 32 GTGTTCCCCGCGGTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCAGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTGGTGGTGACAGAAAACGTACCGCCGCGCCTGCGAGGGCGGCTTGCCATATGGTTACTGGAGATTCGTGCAGGGGTTTATGTTGGCGATACATCGAAGCGCATTCGGGAGATGATCTGGCAACAGATTACACAACTGAGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGGGAAAACCGCCGTATTCCGGTAGATTTGGATGGACTCAGATTAGTTTCTTTTCTTCCCTTTGAAAATCAATGAGTTGAATGTTATTTAATAATAAGGAAATGTTATCTAAATGTTGGTTGATTGTTGGGTGGTAAAAAAAGCGTTCTGGAACAAATATATAGATTTAGT # Right flank : GTGCGTTTACCTACGTAGACCGTATTGTCACTAACGGTGCGAAAGTGATCCATATCCGACGCCTGAAATCAGATCCAGGGGTTAATCTGCTCTCCTGATTCGGGAGAGCTTATGGTCACTTTTGAGACAGTTATGGAAATTAAAATCCTGCA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 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 : GTGTTCCCCGCGGTAGCGGGGATAAACCG # 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 GTGTTCCCCGCGCTAGCGGGGATAAACCG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [51.7-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.14 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 234347-236383 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLT01000002.1 Salmonella enterica subsp. enterica serovar Altendorf strain CFSAN059897 CFSAN059897_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 234347 29 100.0 32 ............................. GTCACACAATGACGCAATACGGGCGCGATACT 234408 29 100.0 32 ............................. GCGTGTCCTGGTATCGGTCAGAAGTCGAACTC 234469 29 100.0 32 ............................. TGCTGGCTCGCCCAGTGTTGGCCGCTATTGCG 234530 29 100.0 32 ............................. TCCTCGGGTGAATCCAGGTAAATGCGGTTACC 234591 29 100.0 33 ............................. TTTTGCAGGGAAACTGGAAGACAAGATGCTGGC 234653 29 100.0 32 ............................. ATCGCTCCGTTCGCGTCGAACACCCGGAGGGG 234714 29 100.0 32 ............................. CCATCAACTGGCAGAGGGCGTGGAATTACCCG 234775 29 100.0 32 ............................. CCGGTGGGCGATCCATCACGGCTTTATACAGC 234836 29 96.6 32 A............................ GGCCACGTCGCGAGCAGCGTGGCTTTTGCCGC 234897 29 100.0 32 ............................. CCCAATATTTCGGAGTGGCCCAACGACGCCGC 234958 29 100.0 32 ............................. CTGCTGCTCTAGCTTCAGAGTACGGGAGTTGA 235019 29 100.0 32 ............................. ATTTAATTAAATTTCAAGAGCAATTTGTAGAC 235080 29 100.0 32 ............................. AATACCCTGTAGTTTCAATTTCTGCAGGTGGG 235141 29 100.0 32 ............................. CCGAGCAGCAGGCCATGATCGACGCCTACGCC 235202 29 100.0 32 ............................. TGCTTCATCTTGTTCACTCAACCAATCGTCGA 235263 29 100.0 32 ............................. GGAACACTAACAATCACTGACGTTGTTGCCGT 235324 29 100.0 32 ............................. TCTGTTGATTTTTCCACTGCAACCAGTCTTTC 235385 29 100.0 32 ............................. CGGGCGATCCGGTCGGACTGGCCGTGCGTGGT 235446 29 100.0 32 ............................. TCGACACCCTCGATGGATTTGATAGAGTCGAG 235507 29 100.0 32 ............................. GTGGTAATTACGACGCATCGTCACCACGTCAA 235568 29 100.0 32 ............................. ACGACGTATTGCGCCGCGCAAATGCCGAGGTT 235629 29 100.0 32 ............................. GCTCCTTAGGCTACGGCGGATTCAGTGTTGAG 235690 29 100.0 32 ............................. ACGTGTTCGCGATAACGGACAACGGGACGCCT 235751 29 100.0 32 ............................. GTGTGGCTTTACCTGGATTGCATATGAAAACC 235812 29 100.0 33 ............................. GAAATCCAGCCCGACGGCACGGGGTTGTCAGTT 235874 29 100.0 32 ............................. ACCACAACATCATTCAAACCGTATAACTACTG 235935 29 100.0 32 ............................. ACACCAGCTACCGGCGACGCCTGCAGGCTGCA 235996 29 100.0 32 ............................. ACGCGATGTCGGTACATGATATGACCACAACA 236057 29 100.0 32 ............................. CCGGAGAAATTCAGGGTCATGGATGAAGCCGG 236118 29 100.0 32 ............................. ATCTTAACCAGCAGGCTGGGTTTGGCGGGATC 236179 29 100.0 26 ............................. GTGATCGCGAGTGCTGAGGCTGAAAT 236234 29 100.0 32 ............................. GTGAGGTTTTTTTTGAGGAGTCCGCCCAATGA 236295 29 100.0 32 ............................. AGGGTCTGGTTACTTCATTACACGCAGGAAAC 236356 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 34 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACCCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTTGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.00, 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 252891-254447 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLT01000002.1 Salmonella enterica subsp. enterica serovar Altendorf strain CFSAN059897 CFSAN059897_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 252891 29 100.0 32 ............................. GCGGCGATTCTGACAAGCCTGATTCTGGTGGA 252952 29 100.0 32 ............................. CCGGTGTCATTGTCAGGATAAAACATGTTTAT 253013 29 100.0 32 ............................. CCTGTTGTTTGTTCTTTGCTCTCGCCCGACGC 253074 29 100.0 32 ............................. CAGACGGAACGATTAAGATGGGGTATCACGTT 253135 29 100.0 32 ............................. TTAACTTTATCAGGCGGTATATCAGTAGCACA 253196 29 100.0 32 ............................. AACGCCCGCAGGCAATATCAATAACCAACGGA 253257 29 100.0 32 ............................. TTATTCAGACACTACGGATCATACCTCGTTGA 253318 29 100.0 32 ............................. AACTTGTGCCAGAGGGGCTATTTTATCGCTTG 253379 29 100.0 32 ............................. ATATTGCGCAGGCTCTCCTTGCGAGTAAAAGC 253440 29 96.6 32 ............................T TTCACACCAGCCACTACTGCCGCGAAATACTC 253501 29 100.0 32 ............................. CGCACACAAGAAATTTGGCGGCAGGAGGGGTT 253562 29 100.0 32 ............................. GACATTTCATCCGGGGTTATTTGCCATTCACG 253623 29 100.0 32 ............................. GGTATCGCATTATTAATCAGTGCGCTCTGCGA 253684 29 100.0 33 ............................. CAGGGGATCTGACGTGTCAATTTTTCTGGCTGC 253746 29 100.0 33 ............................. CAGGGGATCTGACGTGTCAATTTTTCTGGCTGC 253808 29 100.0 32 ............................. CAAGACTGGATTAATGAAGATGGCTACGAAAT 253869 29 100.0 32 ............................. AGCACAGTGCAAATACAAAACGCGGTTAGGCT 253930 29 100.0 32 ............................. CCTTCAGGATTTGTATCCGTTAAAGCTGGAGA 253991 29 100.0 32 ............................. GCGCCCGGTAGCTGAGATAAAACGCTATCTGG 254052 29 100.0 32 ............................. GTGTCGCCCAGCATGAAAGAGACCATCTCAGG 254113 29 100.0 32 ............................. TTGTTTAAGGTTGTGGTGTCGGTTCTTCCGCA 254174 29 100.0 32 ............................. CTGTTTAGCGCCTCGTCCACCAGCGAGGCGCC 254235 29 100.0 32 ............................. CTCCTCGCTATAGCCTGACCCGTTCCCACCAT 254296 29 100.0 32 ............................. TTTGGCGACTGTTTTAGCAGCAGAGCCTGCCG 254357 29 100.0 32 ............................. AGTCATTAAAGAGTCATTTTGTTTTTCCAGGA 254418 29 100.0 0 ............................. | A [254445] ========== ====== ====== ====== ============================= ================================= ================== 26 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGGAATGCCGTCATGGCCTGGGCGACCAACACGGAATCAGGATTTGAGTTTCAGACATGGGGTGAAAACCGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCATTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCGTCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 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 : 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 [71.7-48.3]%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 1 141-718 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLT01000035.1 Salmonella enterica subsp. enterica serovar Altendorf strain CFSAN059897 CFSAN059897_35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 141 29 100.0 32 ............................. ATTACAAATTGTAGTAGTGTAATATTACAATC 202 29 100.0 32 ............................. AAGGGAATAAACGGATGATCGTAAATCCCCTA 263 29 100.0 32 ............................. TTTTTGGTAGTTGCTTTGATAGTCATGTCACT 324 29 100.0 32 ............................. ATTCATATAAACCAAAAACAAACCGGAAAGGG 385 29 100.0 32 ............................. ACGGGTTCAACTGGAGCCACCTGCAATGGGCA 446 29 100.0 32 ............................. CTGCTGGTTGTGGTTGGTATGCGTAAAGTATT 507 29 100.0 32 ............................. GTGGTCACGTCCATATCAATGATTTCGCCGGT 568 29 100.0 32 ............................. TTGCGGCTGTGCGTACGCTGGTTGCGGCTGTA 629 29 96.6 32 ............................A ATTATCGGTACGAAAAATCTCGTACAGTGCAT 690 29 89.7 0 ............TC..............A | ========== ====== ====== ====== ============================= ================================ ================== 10 29 98.6 32 GTGTTCCCCGCGGTAGCGGGGATAAACCG # Left flank : GAGCTATCGACTGAAACAGAAACGAAAGGCTGGGGTTATAGCGGAAGCTAATCCTGAGTAAAACGGTGGATCAATATTAGACCGTCGGTGGAGATGTAAGTGGATCACTTTTTACCCGTCGTTGACACGTATCACCCCGCG # Right flank : AAAAGCAGCATAAATCCCCTTAGATACTCCTGCTGAAGTTGTTACTGCCGCCGCTGTCATACCGGTTGTGGTCGGCGCTGATATTTCACGCTGTAATTCACGGTCTGCTGCATACTGCCCCGGTTATGTTGTTATTTGATGTGGCATCCCGGTAGTTCAGTTGGCTGGCTGACAGGGAGGCATGATGTGAAATATTCATCCGGAGCGGGGGGAGTTTATCCTGCCGGAGCAATATCTTTCTCCTGTACAGCCAGTATCGTGGCTGGTTATCTGGAAACGGAAGGGATAGCGGTCGTGTTGCTGGATGAACATATTGTCCGGAATAACCAGTTACAGGCACAGATGACGGGAGACGTGGAGCTTCTGGTGAAACAGCAGGATCTGGAAGCTGTCCTGTCTGTTCTGAACGATATCAGACAAGGGGCGTATTGTCCGGAGAAGGAACATGAATACGCCAGGGAGGATAATGTATCAAAAAACAGCCGGATGTGGACTGTACT # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 : GTGTTCCCCGCGGTAGCGGGGATAAACCG # 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: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG with 97% 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [46.7-53.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //