Array 1 106769-106088 **** Predicted by CRISPRDetect 2.4 *** >NZ_MKLO01000067.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN008084 CFSAN008084_1698, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 106768 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106707 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106646 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106543 28 96.6 32 ...-......................... TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106483 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106422 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106361 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106300 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106239 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106178 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106117 29 96.6 0 A............................ | A [106090] ========== ====== ====== ====== ============================= ========================================================================== ================== 11 29 99.1 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCGCGCCAGCGGGGATAAACCGAAACGGTAGTGTTTTAAAACCGTTTCGAGGTG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.28, 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: F [2-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-41.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1059-57 **** Predicted by CRISPRDetect 2.4 *** >NZ_MKLO01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN008084 CFSAN008084_1328, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1058 29 100.0 31 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCT G [1054] 997 29 89.7 32 .GTG......................... CGTCACTACCGAGACCGAGACCGAGACCGAGA 936 28 96.6 32 ...-......................... CAACCAGGCTGGATCGTAACTCCTATCCCCTC 876 28 96.6 32 ...-......................... CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 816 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 755 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 694 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 632 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 571 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 510 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 449 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 388 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 327 28 96.6 32 ...-......................... CGTCACTACCGAGACCGAGACCGAGACCGAGA 267 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 206 29 100.0 31 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTG 146 29 89.7 32 .GTG......................... TGGATTATCTGTATTTTACGGAAGTGGGCGCG 85 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 17 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGGTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTA # Right flank : GCCACGTTCGGCGATGTTGGCCCCATCGGTCCAGTGTTCCCCGCGCCAGCGGGGATA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [2,5] 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 [-0.30,-1.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [30.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18492-17189 **** Predicted by CRISPRDetect 2.4 *** >NZ_MKLO01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN008084 CFSAN008084_1328, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18491 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 18430 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 18369 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 18308 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 18247 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 18186 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 18125 28 96.6 32 ...-......................... TGACGCTGGTCTATACCGGCAACGAACGCGAC 18065 28 96.6 32 ...-......................... CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 18005 29 100.0 30 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCG 17946 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC G [17942] 17884 28 96.6 32 ...-......................... CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17824 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 17762 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 17701 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 17640 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 17579 28 96.6 32 ...-......................... TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 17519 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 17458 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 17397 28 96.6 32 ...-......................... CAGGTTATGCGCAAAAATTAATTCATATTATA 17337 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 17276 28 96.6 32 ...-......................... CGTTCATCGGCAGCGTCACGCAATATGAAGAT 17216 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 97.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.93 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.79, # 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 [2,5] 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 [-0.30,-1.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //