Array 1 219135-220749 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTU01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N29338 N29338_contig_28, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 219135 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 219196 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 219257 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 219318 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 219379 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 219440 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 219501 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 219562 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 219623 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 219684 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 219745 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 219806 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 219867 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 219928 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 219989 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 220050 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 220111 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 220172 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 220234 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 220295 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 220356 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 220417 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 220478 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 220539 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 220600 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 220661 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 220722 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 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 236882-238358 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTU01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N29338 N29338_contig_28, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 236882 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 236943 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 237005 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 237066 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 237127 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 237188 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 237249 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 237310 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 237371 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 237432 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 237493 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 237554 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 237615 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 237677 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 237780 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 237841 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 237902 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 237963 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 238024 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 238085 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 238146 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 238207 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 238268 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 238329 29 96.6 0 A............................ | A [238355] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //