Array 1 1107-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYB01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38943 N38943_contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1106 28 96.6 32 -............................ TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1046 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 985 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 924 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 863 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 802 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 741 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 680 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 619 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 558 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 496 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 393 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 332 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 271 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 210 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 149 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 88 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ========================================================================== ================== 18 29 99.2 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.15, 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 [1-2] 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 [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 272-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYB01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38943 N38943_contig_21, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 271 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 210 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 149 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 88 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17714-16404 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYB01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38943 N38943_contig_21, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17713 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 17652 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 17591 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 17530 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17469 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17408 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17347 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17286 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 17225 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 17164 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 17103 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 17042 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 16981 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16919 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16858 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16797 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16736 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16675 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16614 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16553 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16492 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16431 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCC # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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], //