Array 1 1229509-1231124 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016412.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM44454 isolate 2014am-3028 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1229509 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 1229571 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 1229632 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 1229693 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 1229754 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 1229815 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 1229876 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 1229937 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 1229998 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 1230059 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 1230120 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 1230181 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 1230242 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 1230303 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 1230364 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 1230425 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 1230486 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 1230547 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 1230609 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 1230670 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 1230731 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 1230792 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 1230853 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 1230914 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 1230975 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 1231036 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 1231097 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 1247407-1249304 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016412.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM44454 isolate 2014am-3028 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 1247407 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 1247468 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 1247529 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 1247590 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 1247652 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 1247713 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 1247774 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 1247835 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 1247896 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 1247957 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 1248018 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 1248079 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 1248140 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 1248201 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 1248262 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 1248323 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 1248384 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 1248445 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 1248506 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 1248567 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 1248625 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 1248686 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1248747 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 1248808 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 1248869 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1248930 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1248991 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1249052 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1249153 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1249214 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1249275 29 93.1 0 A...........T................ | A [1249301] ========== ====== ====== ====== ============================= ======================================================================== ================== 31 29 98.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.07, 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], //