Array 1 289931-291546 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPD01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-115-10 115_10_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 289931 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 289993 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 290054 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 290115 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 290176 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 290237 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 290298 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 290359 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 290420 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 290481 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 290542 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 290603 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 290664 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 290725 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 290786 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 290847 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 290908 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 290969 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 291031 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 291092 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 291153 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 291214 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 291275 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 291336 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 291397 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 291458 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 291519 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 307829-309726 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPD01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-115-10 115_10_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 307829 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 307890 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 307951 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 308012 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 308074 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 308135 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 308196 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 308257 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 308318 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 308379 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 308440 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 308501 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 308562 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 308623 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 308684 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 308745 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 308806 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 308867 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 308928 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 308989 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 309047 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 309108 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 309169 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 309230 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 309291 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 309352 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 309413 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 309474 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 309575 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 309636 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 309697 29 93.1 0 A...........T................ | A [309723] ========== ====== ====== ====== ============================= ======================================================================== ================== 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], //