Array 1 161270-160588 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJU01000023.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N47728 N47728_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 161269 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161166 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161105 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161044 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 160983 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 160922 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 160861 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160800 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160739 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160678 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160617 29 96.6 0 A............................ | A [160590] ========== ====== ====== ====== ============================= ========================================================================== ================== 11 29 99.4 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGAAACGGTAGTGTTTTAAAACCGTTTCGAGGTG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.94 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.28, 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: NA [50.0-41.7]%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 1 16209-16359 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJU01000036.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N47728 N47728_contig_36, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16209 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16270 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 16331 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CAACCAGGCTGGATCGTAACTCCTATCCCCTCGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1551-58 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJU01000068.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N47728 N47728_contig_68, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1550 28 96.6 32 -............................ AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1490 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1429 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1368 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1307 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1246 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 1185 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1124 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1063 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1002 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 941 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 879 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 818 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 757 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 696 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 635 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 574 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 513 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 452 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 391 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 330 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 269 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 208 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 147 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 86 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GCCACGTTCGGCGATGTTGGCCCCATCGGTCCAGTGTTCCCCGCGCCAGCGGGGATAA # 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: F [2-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [31.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //