Array 1 5377-6930 **** Predicted by CRISPRDetect 2.4 *** >NZ_PDBN01000068.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN016159 NODE_68_length_14196_cov_31.0594, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5377 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 5438 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5499 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 5560 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5621 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5682 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5743 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5804 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5865 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5926 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 5987 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6048 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6109 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6170 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6231 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6292 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 6353 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6415 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6476 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6537 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6598 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6659 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6720 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6781 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6842 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6903 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 26 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 [1-10] 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 1 8987-10463 **** Predicted by CRISPRDetect 2.4 *** >NZ_PDBN01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN016159 NODE_8_length_139405_cov_31.9947, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8987 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9048 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9110 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9171 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9232 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9293 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9354 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9415 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9476 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9537 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 9598 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 9659 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 9720 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 9782 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 9843 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [9885] 9885 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 9946 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10007 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10068 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10129 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10190 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10251 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10312 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10373 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10434 29 96.6 0 A............................ | A [10460] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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], //