Array 1 107009-106082 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGMTJ010000023.1 Salmonella enterica strain 2018_SM1002 2018-SM1002.R1_(paired)_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107008 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106947 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106886 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106825 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106763 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106660 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106599 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106538 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106477 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106416 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106355 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106294 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106233 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106172 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106111 29 96.6 0 A............................ | A [106084] ========== ====== ====== ====== ============================= ========================================================================== ================== 15 29 99.5 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCAGCGGGGATAAACCGTGGATTATCTGTATTTTACGGAAGTGGGCGC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.19, 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: F [50.0-38.3]%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 44819-46311 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGMTJ010000033.1 Salmonella enterica strain 2018_SM1002 2018-SM1002.R1_(paired)_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44819 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 44880 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 44941 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45002 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 45063 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 45124 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45185 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45246 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45307 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45368 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 45429 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 45490 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 45551 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 45612 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 45673 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 45734 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 45796 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 45857 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 45918 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 45979 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 46040 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 46101 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 46162 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 46223 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 46284 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 62443-63265 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGMTJ010000033.1 Salmonella enterica strain 2018_SM1002 2018-SM1002.R1_(paired)_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 62443 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 62504 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 62565 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 62626 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 62687 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 62748 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 62809 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 62871 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 62932 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 62993 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 63054 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 63115 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 63176 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 63237 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCGG # 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: 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 [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-35.0]%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], //