Array 1 422311-423863 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTOO01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain MALTAd isolate H177, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 422311 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 422372 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 422433 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 422494 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 422555 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 422616 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 422677 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 422738 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 422799 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 422860 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 422921 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 422982 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 423043 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 423104 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 423165 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 423226 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 423287 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 423348 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 423409 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 423470 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 423531 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 423592 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 423653 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 423714 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 423775 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 423836 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 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 [0-9] 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 439996-440635 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTOO01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain MALTAd isolate H177, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 439996 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 440057 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 440118 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 440179 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 440240 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 440301 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 440362 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 440423 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 440484 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 440545 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 440606 29 96.6 0 A............................ | A [440632] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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], //