Array 1 108372-107062 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOZC01000054.1 Salmonella enterica subsp. enterica serovar Indiana str. ATCC 51959 SEEI1959_1000005, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108371 27 93.1 32 --........................... CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 108312 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 108251 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 108190 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 108129 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 108068 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 108007 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 107946 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 107885 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 107824 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 107763 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 107702 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 107641 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 107580 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 107519 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 107458 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 107396 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 107334 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 107273 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 107212 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107151 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 107090 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%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 1 518-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOZC01000029.1 Salmonella enterica subsp. enterica serovar Indiana str. ATCC 51959 SEEI1959_4000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 517 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 456 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 395 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 334 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 273 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 212 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 151 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 90 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : G # 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: 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: 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 [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17636-17059 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOZC01000029.1 Salmonella enterica subsp. enterica serovar Indiana str. ATCC 51959 SEEI1959_4000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17635 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 17574 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 17513 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 17452 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 17391 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 17330 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 17269 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 17208 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 17147 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 17086 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 96.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCCGCGCCAGCGGGGATAAACCGCCATTTTTGATCATCTCCTCCAGCCTGCTGA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 5:0, 6:0.25, 7:0.01, 8:1, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCTAGCGGGGATAAACCA # 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 [5-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-36.7]%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], // Array 1 120193-120648 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOZC01000067.1 Salmonella enterica subsp. enterica serovar Indiana str. ATCC 51959 SEEI1959_5000006, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 120193 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 120254 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 120315 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 120376 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 120437 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 120498 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 120559 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 120620 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : CC # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //