Array 1 289859-291474 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAR01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N20078 N20078_R1_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 289859 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 289921 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 289982 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 290043 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 290104 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 290165 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 290226 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 290287 29 96.6 32 ...........A................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 290348 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 290409 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 290470 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 290531 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 290592 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 290653 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 290714 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 290775 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 290836 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 290897 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 290959 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 291020 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 291081 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 291142 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 291203 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 291264 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 291325 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 291386 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 291447 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [1-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 307757-309309 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAR01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N20078 N20078_R1_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 307757 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 307818 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 307879 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 307940 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 308002 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 308063 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 308124 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 308185 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 308246 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 308307 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 308368 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 308429 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 308490 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 308551 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 308612 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 308673 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 308734 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 308792 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 308853 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 308914 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 308975 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 309036 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 309097 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 309158 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 309219 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 309280 29 93.1 0 A...........T................ | A [309306] ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [0-5] 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], //