Array 1 88335-89950 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPB01000003.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-123-13 123_13_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88335 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 88397 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 88458 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 88519 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 88580 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 88641 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 88702 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 88763 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 88824 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 88885 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 88946 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 89007 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 89068 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 89129 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 89190 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 89251 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 89312 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 89373 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 89435 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 89496 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 89557 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 89618 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 89679 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 89740 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 89801 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 89862 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 89923 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 106233-108130 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPB01000003.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-123-13 123_13_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 106233 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 106294 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 106355 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 106416 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 106478 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 106539 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 106600 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 106661 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 106722 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 106783 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 106844 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 106905 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 106966 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 107027 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 107088 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 107149 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 107210 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 107271 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 107332 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 107393 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 107451 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 107512 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 107573 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 107634 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 107695 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 107756 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 107817 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 107878 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 107979 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 108040 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 108101 29 93.1 0 A...........T................ | A [108127] ========== ====== ====== ====== ============================= ======================================================================== ================== 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], //