Array 1 979977-981469 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP086118.1 Salmonella enterica subsp. enterica serovar Typhimurium strain S34 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 979977 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 980038 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 980099 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 980160 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 980221 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 980282 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 980343 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 980404 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 980465 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 980526 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 980587 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 980648 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 980709 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 980770 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 980831 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 980892 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 980954 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 981015 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 981076 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 981137 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 981198 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 981259 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 981320 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 981381 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 981442 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 997601-999565 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP086118.1 Salmonella enterica subsp. enterica serovar Typhimurium strain S34 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 997601 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 997662 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 997723 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 997784 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 997845 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 997906 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 997967 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 998029 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 998090 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 998151 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 998212 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 998273 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 998334 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 998395 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 998456 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 998517 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 998578 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 998639 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 998700 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 998761 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 998822 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 998884 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 998945 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [998987] 998987 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 999048 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 999109 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 999170 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 999231 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 999292 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 999353 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 999414 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 999475 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 999536 29 96.6 0 A............................ | A [999562] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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 [1-13] 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], //