Array 1 163269-161853 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGY01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45935 N45935_contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163268 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 163207 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163145 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163084 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 163023 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162962 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162901 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 162840 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162779 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162718 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162657 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162596 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162534 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162431 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162370 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162309 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162248 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 162187 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 162126 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 162065 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162004 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161943 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161882 29 96.6 0 A............................ | A [161855] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-33.3]%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 51-1421 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGY01000055.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45935 N45935_contig_55, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 51 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 112 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 173 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 234 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 295 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 356 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 417 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 478 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 539 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 600 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 661 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 722 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 783 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 844 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 906 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 967 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1028 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1089 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1150 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1211 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1272 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1333 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1394 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGGCGAGGTCAATAAAAAATGGTGTGGCTTTACCG # 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 [1-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17554-17702 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHGY01000055.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45935 N45935_contig_55, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17554 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17615 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 17676 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 3 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # Questionable array : NO Score: 5.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%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], //