Array 1 162648-160866 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFF01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44697 N44697_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162647 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162586 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162525 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162464 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162403 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162341 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162280 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162219 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162158 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162097 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162036 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161975 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161914 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161853 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161792 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161731 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161670 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161609 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161547 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161444 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161383 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161322 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161261 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161200 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161139 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161078 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161017 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160956 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160895 29 96.6 0 A............................ | A [160868] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 179723-178780 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFF01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44697 N44697_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 179722 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 179661 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 179600 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 179539 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 179478 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 179417 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179356 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179295 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 179234 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179173 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179112 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 179051 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 178990 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 178929 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178868 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178807 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [6-0] 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], //