Array 1 2710-1339 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYVJ01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N31409 N31409_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2709 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 2648 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 2587 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 2526 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 2465 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 2404 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 2343 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 2282 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 2221 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 2160 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 2099 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 2038 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1977 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1916 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1854 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1793 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1732 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1671 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1610 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1549 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1488 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1427 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1366 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [9-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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 163429-161647 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYVJ01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N31409 N31409_contig_21, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163428 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163367 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163306 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163245 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 163184 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163122 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163061 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163000 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162939 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162878 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162817 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162756 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162695 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 162634 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162573 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162512 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162451 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162390 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162328 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162225 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162164 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162103 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162042 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161981 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161920 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161859 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161798 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161737 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161676 29 96.6 0 A............................ | A [161649] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //