Array 1 982846-984338 **** Predicted by CRISPRDetect 2.4 *** >NZ_OU015328.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00027951 isolate AUSMDU00027951 chromosome C1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 982846 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 982907 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 982968 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 983029 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 983090 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 983151 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 983212 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 983273 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 983334 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 983395 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 983456 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 983517 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 983578 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 983639 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 983700 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 983761 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 983823 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 983884 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 983945 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 984006 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 984067 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 984128 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 984189 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 984250 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 984311 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 1000470-1002434 **** Predicted by CRISPRDetect 2.4 *** >NZ_OU015328.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00027951 isolate AUSMDU00027951 chromosome C1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1000470 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1000531 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1000592 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1000653 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1000714 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1000775 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1000836 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1000898 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1000959 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1001020 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1001081 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1001142 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1001203 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1001264 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1001325 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1001386 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1001447 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1001508 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1001569 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1001630 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1001691 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1001753 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 1001814 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [1001856] 1001856 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1001917 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1001978 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1002039 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1002100 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1002161 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1002222 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1002283 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1002344 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1002405 29 96.6 0 A............................ | A [1002431] ========== ====== ====== ====== ============================= ================================= ================== 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], //