Array 1 1-454 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVJI01000097.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CCRJ_26 Cont98, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 -............................ AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 61 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 122 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 183 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 244 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 305 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 366 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 427 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 8 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5229-6036 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVJI01000169.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CCRJ_26 Cont173, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5229 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 5290 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5351 29 89.7 26 .........................GAG. TCAATAAAAAATGGTGTGGCTTTACC 5406 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 5467 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5528 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5589 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5650 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 5711 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5772 29 86.2 25 .........................GTTA TGCGCAAAAATTAATTCATATTATA Deletion [5826] 5826 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 5887 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 5948 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6009 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 96.3 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 5:0, 6:0.25, 7:-0.03, 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 [4-10] 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 22168-23743 **** Predicted by CRISPRDetect 2.4 *** >NZ_MVJI01000169.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CCRJ_26 Cont173, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 22168 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 22229 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 22290 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 22352 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 22413 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 22474 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 22535 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 22596 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 22657 29 100.0 29 ............................. ATTATCTGTATTTTACGGAAGTGGGCGCG 22715 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 22776 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 22837 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 22898 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 22959 29 93.1 27 ..........................GT. GGCGTAGCCAGCTCATCGCTATTTTGC 23015 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 23076 29 96.6 27 ............................A GGGCGATATTGTTGTTGGTGAATGGGA 23132 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 23235 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 23296 29 96.6 28 ...........................T. GTTATAACATCGCAGCAAAATCAAAAGA 23353 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 23414 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 23475 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 23536 29 100.0 27 ............................. TTTCCGCTAAATACCCCCGCAGTGATT 23592 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 23653 29 100.0 32 ............................. AGCGGCGTTCCGCAGTCGACAAGGGCTGAAAA 23714 29 96.6 0 A............................ | A [23740] ========== ====== ====== ====== ============================= ========================================================================== ================== 26 29 98.8 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.11, 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 [2-4] 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], //