Array 1 421801-422743 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIN01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068046 CFSAN068046_contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 421801 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 421862 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 421923 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 421984 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 422045 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 422106 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 422167 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 422228 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 422289 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 422350 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 422411 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 422472 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 422533 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 422594 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 422655 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 422716 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 438875-440723 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIN01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068046 CFSAN068046_contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 438875 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 438936 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 438997 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 439058 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 439119 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 439180 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 439241 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 439303 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 439364 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 439431 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 439492 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 439553 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 439614 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 439675 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 439736 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 439797 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 439858 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 439919 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 439980 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 440042 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 440145 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 440206 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 440267 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 440328 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 440389 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 440450 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 440511 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 440572 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 440633 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 440694 29 96.6 0 A............................ | A [440720] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], //