Array 1 3078171-3076633 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060507.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3078170 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3078109 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3078048 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3077987 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3077926 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3077864 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3077803 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3077742 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3077681 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3077620 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3077559 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3077498 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3077437 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3077376 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3077315 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3077254 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3077193 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3077131 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3077028 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3076967 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3076906 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3076845 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3076784 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3076723 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3076662 29 96.6 0 A............................ | A [3076635] ========== ====== ====== ====== ============================= ========================================================================== ================== 25 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.10, 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 [3-0] 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 3096284-3094303 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060507.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3096283 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3096222 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3096161 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 3096100 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 3096039 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 3095978 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3095917 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3095856 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 3095795 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3095734 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3095673 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3095612 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3095551 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3095490 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3095429 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3095368 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3095307 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3095246 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3095185 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3095124 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3095063 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3095002 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3094941 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3094880 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3094818 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3094757 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3094696 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3094635 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3094574 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3094513 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3094452 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3094391 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3094330 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [10-0] 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], //