Array 1 107536-106067 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZXZ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3663 BCW_7505_1__paired__contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================================================================== ================== 107535 29 100.0 85 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 107421 29 62.1 32 NNNNNNNNNNN.................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107360 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107298 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107237 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107176 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107115 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107054 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 106993 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 106932 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 106871 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106810 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106749 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106688 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106627 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106565 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106462 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106401 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106340 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106279 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106218 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106157 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106096 29 96.6 0 A............................ | A [106069] ========== ====== ====== ====== ============================= ===================================================================================== ================== 23 29 97.9 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.29, 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 [3-11] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 125649-123668 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZXZ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3663 BCW_7505_1__paired__contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125648 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125587 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125526 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125465 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125404 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125343 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125282 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125221 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125160 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125099 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125038 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 124977 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124916 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124855 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124794 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124733 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124672 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124611 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124550 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124489 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124428 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124367 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124306 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124245 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124183 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124122 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124061 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124000 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 123939 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 123878 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123817 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123756 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123695 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [10-0] 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], //