Array 1 6347-7778 **** Predicted by CRISPRDetect 2.4 *** >NZ_JTED01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 86-0368 CFSAN001197_contig0004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 6347 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 6408 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 6469 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 6530 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 6591 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 6652 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 6713 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 6774 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 6835 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 6896 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 6957 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 7018 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 7079 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 7140 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 7201 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 7262 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7323 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7384 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7445 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 7506 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7568 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7629 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7690 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7751 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-8] 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 23911-25082 **** Predicted by CRISPRDetect 2.4 *** >NZ_JTED01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 86-0368 CFSAN001197_contig0004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 23911 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 23972 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 24034 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 24095 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 24156 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 24217 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 24278 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 24339 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 24401 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 24504 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 24565 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 24626 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 24687 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 24748 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 24809 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 24870 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 24931 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 24992 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 25053 29 96.6 0 A............................ | A [25079] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.14, 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 [0-3] 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], //