Array 1 3048170-3046199 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039593.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014863 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3048169 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3048108 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3048047 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3047986 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3047925 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3047864 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3047803 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3047741 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3047680 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 3047613 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3047552 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3047491 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3047430 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3047369 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3047308 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3047247 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3047186 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3047125 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3047064 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3047003 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3046942 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3046880 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3046777 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3046716 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3046655 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3046594 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3046533 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3046472 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3046411 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3046350 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3046289 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3046228 29 96.6 0 A............................ | A [3046201] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 3066571-3065078 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039593.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014863 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3066570 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3066509 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3066448 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3066387 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3066326 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3066265 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3066204 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3066143 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3066082 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3066021 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3065960 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3065899 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3065838 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3065777 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3065716 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3065655 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3065593 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3065532 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3065471 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3065410 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3065349 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3065288 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3065227 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3065166 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3065105 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 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 [9-1] 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], //