Array 1 12005-10156 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVFP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033907 CFSAN033907_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 12004 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 11943 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 11882 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 11821 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 11760 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 11699 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 11638 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 11576 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 11515 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 11448 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 11387 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 11326 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 11265 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 11204 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 11143 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 11082 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 11021 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 10960 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 10899 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 10837 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 10734 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10673 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10612 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10551 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10490 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10429 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10368 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10307 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10246 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10185 29 96.6 0 A............................ | A [10158] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 29079-28136 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVFP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033907 CFSAN033907_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 29078 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 29017 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 28956 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 28895 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 28834 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 28773 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 28712 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 28651 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 28590 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 28529 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 28468 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 28407 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 28346 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 28285 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 28224 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 28163 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //