Array 1 1370-2743 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBX01000287.1 Salmonella enterica subsp. enterica serovar Indiana strain 96-0276 NODE_287_length_4775_cov_1.3846, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1370 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 1431 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 1492 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 1553 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 1614 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 1675 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 1736 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 1797 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 1858 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1919 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 1980 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 2041 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 2102 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 2163 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 2224 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 2285 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 2346 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 2408 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 2470 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 2531 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 2592 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 2653 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 2714 29 100.0 0 ............................. | A [2741] ========== ====== ====== ====== ============================= ================================= ================== 23 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [70.0-50.0]%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 1 724-23 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBX01000713.1 Salmonella enterica subsp. enterica serovar Indiana strain 96-0276 NODE_713_length_760_cov_0.884101, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 723 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 662 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 601 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 540 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 479 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 417 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 356 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 295 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 234 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 173 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 112 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 51 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 12 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AACCGATCACCGGCACGCGCGATAACGGGTCTGATT # Right flank : GCCATAAGAGCATCCCCGCCAGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [15.0-26.7]%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 1 145-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBX01000178.1 Salmonella enterica subsp. enterica serovar Indiana strain 96-0276 NODE_178_length_7881_cov_1.67129, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 144 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 83 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 22 22 65.5 0 ...................AAG------- | ========== ====== ====== ====== ============================= ================================ ================== 3 29 88.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : G # Questionable array : NO Score: 4.78 # Score Detail : 1:0, 2:3, 3:0, 4:0.42, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [3,1] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATGAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [3.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,4.77 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //