Array 1 3043657-3042180 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039565.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014849 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3043656 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3043595 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3043533 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3043472 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3043411 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3043350 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3043289 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3043228 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3043167 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3043106 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3043045 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3042984 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3042923 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3042861 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3042758 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3042697 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3042636 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3042575 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3042514 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3042453 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3042392 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3042331 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3042270 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3042209 29 96.6 0 A............................ | A [3042182] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3061404-3059789 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039565.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014849 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3061403 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3061342 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3061281 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3061220 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3061159 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3061098 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3061037 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3060976 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3060915 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3060854 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3060793 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060732 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060671 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3060610 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3060549 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3060488 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3060427 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3060366 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3060304 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3060243 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3060182 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3060121 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3060060 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3059999 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3059938 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3059877 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3059816 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 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], //