Array 1 1828-396 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBR01000074.1 Salmonella enterica subsp. enterica serovar Indiana strain 04-0231 NODE_74_length_21607_cov_4.13758, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 1827 29 100.0 32 ............................. CGCGAACAAATGCCCTTATCTGCTTAGTCTTG 1766 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 1705 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 1644 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 1583 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 1522 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 1461 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 1400 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 1339 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 1277 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 1216 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 1155 29 100.0 32 ............................. GATTATGGTTCATTACGTGAAATTTTACTGGA 1094 29 100.0 32 ............................. GCCCGCGGAGAGGTTGCGCCAGTGGATCAGAT 1033 29 100.0 32 ............................. ACTCTCGGAACGGATCGGGCCATGTGCATCGC 972 29 100.0 34 ............................. GCTTCATTCAGTCAACCAAACGTCTCTCAGGGGG 909 27 82.8 32 .G.--...T............T....... GAGATGGGTTGAGCAGGCCAGATTTGCGCAGA 850 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 789 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 728 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 667 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 606 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 545 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 484 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 423 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================== ================== 24 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 3902-5091 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBR01000148.1 Salmonella enterica subsp. enterica serovar Indiana strain 04-0231 NODE_148_length_6285_cov_3.67589, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3902 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 3963 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 4024 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 4085 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 4146 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 4207 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 4268 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 4329 29 100.0 33 ............................. TGGTGCCTGGAACTCATCCCGTGGTTATCCTGC 4391 29 100.0 32 ............................. CGGCCGAACGTTACGGCGACGAGGTCGAGAAA 4452 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 4513 29 100.0 32 ............................. AAAAATCTCCTTCACAACCTGGGGGGCTCTGG 4574 29 100.0 32 ............................. AAAACAATATTAGACAGCGCGCTATATAAAGA 4635 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 4696 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 4757 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 4818 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 4879 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 4940 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 5001 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 5062 29 100.0 0 ............................. | A [5089] ========== ====== ====== ====== ============================= ================================= ================== 20 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATCAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCCCATAAAAAGTCGCTGGCTTCCCGATCGTAACCGAGATCGTAACGTAATAAATTTTGCGCAGCCACTGAACGTTGGCTAAGGACTTTGCCAAAGGCAACGTCAGAGATCGTCTGCAAGCCTGCTGGCGCAGCAATTTTCTGCTCGTATACGCCGTCAACGAGTGCTCTGGCATTATCCGGCATACGGATCTCACCATGTTGACGCAGCAGCGCCTGTGTACGCCACAGG # 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: NA [41.7-50.0]%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], //