Array 1 761-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMT01000031.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51255 N51255_contig_31, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 760 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 699 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 638 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 577 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 516 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 454 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 393 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 332 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 271 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 210 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 149 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 88 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 13 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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], // Array 2 17348-16893 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMT01000031.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51255 N51255_contig_31, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17347 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 17286 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 17225 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 17164 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 17103 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 17042 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16981 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16920 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 96.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAGCCGCGTCACTTTCTGACATTTTATTCAGTTCGTT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.98, # 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 [6-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-45.0]%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 1 52-856 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMT01000041.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51255 N51255_contig_41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 52 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 113 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 175 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 278 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 339 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 400 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 461 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 522 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 583 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 644 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 705 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 766 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 827 29 96.6 0 A............................ | A [853] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCAGCGGGGATAAACCGATATTCGCCGCTTTCCATTTACCGAACGTAACG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [40.0-48.3]%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 1 50-810 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMT01000050.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51255 N51255_contig_50, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 111 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 172 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 233 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 294 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 355 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 416 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 477 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 538 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 599 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 660 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 721 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 782 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 13 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCCGGCATCAGCGCCGATCCGTTCATAGTGCCCG # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [28.3-36.7]%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], //