Array 1 97655-99270 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGT01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N45929 N45929_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97655 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 97717 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 97778 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 97839 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 97900 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 97961 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 98022 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 98083 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 98144 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 98205 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 98266 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 98327 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 98388 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 98449 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 98510 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 98571 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 98632 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 98693 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 98755 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 98816 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 98877 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 98938 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 98999 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 99060 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 99121 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 99182 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 99243 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 115553-117450 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGT01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N45929 N45929_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 115553 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 115614 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 115675 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 115736 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 115798 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 115859 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 115920 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 115981 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 116042 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 116103 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 116164 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 116225 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 116286 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 116347 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 116408 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 116469 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 116530 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 116591 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 116652 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 116713 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 116771 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 116832 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 116893 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 116954 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 117015 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 117076 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 117137 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 117198 29 100.0 11 ............................. CGGCCAGCCAT Deletion [117238] 117238 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 117299 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 117360 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117421 29 93.1 0 A...........T................ | A [117447] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 [0-11] 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], //