Array 1 161593-160911 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIKL01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain I14 scaffold_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 161592 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161489 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161428 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161367 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161306 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161245 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161184 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161123 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161062 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161001 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160940 29 96.6 0 A............................ | A [160913] ========== ====== ====== ====== ============================= ========================================================================== ================== 11 29 99.4 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCGGGGATAAACCGACGCCCCGAATGTGTTTGCCTCGCCCGCTGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGACGCCCCGAATGTGTTTGCCTCGCCCGCTGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGTGGATTATCTGTATTTTACGGAAGTGGGCGCGGTGTTCCCCGCGCCAGCGGGGATAAACCGGTCGTTCATCAGGCACTACCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.94 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.28, 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: F [50.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 162922-161855 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIKL01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain I14 scaffold_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162921 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162860 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162799 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162738 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162677 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162616 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162555 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162493 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162432 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162371 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162310 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162249 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162188 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162127 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162066 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 162005 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161944 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161883 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 18 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTCGTTCATCAGGCACTACCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGTGTTCCCCGCGCCAGCGGGGATAAACCGAATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATCGTGTTCCCCGCGCCAGCGGGGATAAACCGAGCCGTTTCCGCTAAATACCCCCGCAGTGATTGTGTTCCCCGCGCCAGCGGGGATAAACCGTTCTTGAATATGATTGCGGGTATATGTGGATAGTGTTCCCCGCGC # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [15.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 180546-179053 **** Predicted by CRISPRDetect 2.4 *** >NZ_MIKL01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain I14 scaffold_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180545 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 180484 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180423 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180362 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 180301 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 180240 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 180179 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 180118 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180057 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179996 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179935 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 179874 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 179813 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 179752 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 179691 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 179630 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 179568 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179507 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179446 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179385 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179324 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179263 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179202 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 179141 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179080 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], //