Array 1 107744-106267 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVFI01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033931 CFSAN033931_contig0001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107743 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107682 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107620 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107559 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107498 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107437 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107376 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107315 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107254 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107193 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107132 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107071 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107010 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106948 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106845 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106784 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106723 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106662 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106601 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106540 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106479 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106418 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106357 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106296 29 96.6 0 A............................ | A [106269] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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 125430-123876 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVFI01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033931 CFSAN033931_contig0001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125429 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 125368 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125307 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 125246 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125185 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125124 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125063 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 125002 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124941 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124880 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124819 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124758 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124697 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124636 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124575 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124514 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 124453 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124391 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124330 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124269 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124208 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124147 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124086 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124025 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123964 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123903 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [10-1] 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], //