Array 1 158200-156302 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPI01000011.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-79-10 79_10_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 158199 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 158138 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 158077 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 158016 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 157954 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 157893 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 157832 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 157771 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 157710 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 157649 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 157588 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 157527 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 157466 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 157405 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 157344 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 157283 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 157222 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 157161 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 157100 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 157039 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 156981 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 156920 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 156859 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 156798 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 156737 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 156676 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 156615 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 156554 29 100.0 11 ............................. CGGCCAGCCAT Deletion [156515] 156514 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 156453 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 156392 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 156331 29 93.1 0 A...........T................ | A [156304] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 176098-174482 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPI01000011.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-79-10 79_10_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 176097 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 176035 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 175974 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 175913 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 175852 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 175791 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 175730 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 175669 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 175608 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 175547 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 175486 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 175425 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 175364 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 175303 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 175242 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 175181 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 175120 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 175059 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 174997 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 174936 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 174875 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 174814 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 174753 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 174692 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 174631 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 174570 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 174509 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //