Array 1 316863-318233 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHNG01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51268 N51268_contig_24, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 316863 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 316924 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 316985 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 317046 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 317107 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 317168 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 317229 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 317290 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 317351 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 317412 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317473 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 317534 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 317595 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 317656 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 317718 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 317779 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 317840 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 317901 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 317962 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 318023 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 318084 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 318145 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 318206 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 334366-336147 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHNG01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51268 N51268_contig_24, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 334366 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 334427 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 334488 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 334549 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 334610 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 334672 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 334733 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 334794 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 334855 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 334916 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 334977 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 335038 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 335099 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 335160 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 335221 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 335282 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 335343 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 335404 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 335466 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 335527 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [335569] 335569 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335630 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335691 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335752 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335813 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335874 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335935 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335996 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 336057 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 336118 29 96.6 0 A............................ | A [336144] ========== ====== ====== ====== ============================= ================================= ================== 30 29 98.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //