Array 1 1251-2727 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMM01000034.1 Salmonella enterica subsp. enterica serovar 4,12:i:- strain CVM N43477 N43477_contig_34, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1251 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1312 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1374 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1435 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1496 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1557 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1618 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1679 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1740 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1801 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1862 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1923 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1984 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 2046 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 2149 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2210 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2271 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2332 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2393 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2454 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2515 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2576 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2637 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2698 29 96.6 0 A............................ | A [2724] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [1-3] 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], // Array 1 438-45 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMM01000048.1 Salmonella enterica subsp. enterica serovar 4,12:i:- strain CVM N43477 N43477_contig_48, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 437 27 89.7 32 --.......................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 378 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 317 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 256 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 195 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 134 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 73 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGCG # Questionable array : NO Score: 5.94 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.85, # 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [36.7-0.0]%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], // Array 1 1117-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMM01000049.1 Salmonella enterica subsp. enterica serovar 4,12:i:- strain CVM N43477 N43477_contig_49, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1116 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1055 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 994 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 933 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 872 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 811 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 750 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 689 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 628 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 567 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 506 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 445 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 384 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 323 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 262 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 201 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 140 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: F [36.7-1.7]%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], //