Array 1 249009-250624 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRH01000016.1 Salmonella enterica subsp. enterica serovar Infantis strain CFSAN024715 CFSAN024715_contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 249009 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 249071 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 249132 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 249193 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 249254 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 249315 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 249376 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 249437 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 249498 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 249559 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 249620 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 249681 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 249742 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 249803 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 249864 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 249925 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 249986 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 250047 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 250109 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 250170 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 250231 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 250292 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 250353 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 250414 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 250475 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 250536 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 250597 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-6] 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 266907-268621 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRH01000016.1 Salmonella enterica subsp. enterica serovar Infantis strain CFSAN024715 CFSAN024715_contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 266907 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 266968 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 267029 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 267090 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 267152 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 267213 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 267274 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 267335 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 267396 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 267457 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 267518 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 267579 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 267640 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 267701 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 267762 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 267823 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 267884 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 267942 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 268003 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 268064 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 268125 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 268186 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 268247 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 268308 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 268369 29 100.0 11 ............................. CGGCCAGCCAT Deletion [268409] 268409 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 268470 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 268531 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 268592 29 93.1 0 A...........T................ | A [268618] ========== ====== ====== ====== ============================= ================================= ================== 29 29 97.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.05, 8:1, 9:0.97, # 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 [0-11] 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], //