Array 1 972786-973606 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060132.1 Salmonella enterica subsp. enterica serovar London strain HA3-IN1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 972786 29 100.0 32 ............................. GACTACCCGGCATTTGTGGACGCATATCGGCA 972847 29 100.0 32 ............................. CTTCCAGTTTTTTCCCTGCCTTTTGGGCGGCG 972908 29 100.0 32 ............................. TACCTGACGCTGATCCAGTCGATCGCGCTGCT 972969 29 100.0 32 ............................. ATTTTCTTTGCGCCCGTACTCAACGTGGGAGG 973030 29 96.6 32 ............................A TCGCCCCGAGGTCGTTCACGACGTCCTCGTGC 973091 29 100.0 32 ............................. CGTTACTCCAGACAATAGAGCGCCTCACCACT 973152 29 100.0 32 ............................. CATAGGGGCCGCAGAAGTTGCCACAACCACAA 973213 29 100.0 32 ............................. GGGTCAATGTTGATGCCGGGGTGTGTTGTTAC 973274 29 100.0 32 ............................. GGAACTCATGCTTTTACCTGATGCGGCGGCAC 973335 29 96.6 32 ..........T.................. CGAGGCGGCATCAAAGACGACGAAACACCATG 973396 29 100.0 32 ............................. GATTTTCCCGCGTTGGTTGTATGCCGTGCGTG 973457 29 100.0 32 ............................. CGCGTATTAAACGGGCAGATCGAGGAAACAAC 973518 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 973579 28 93.1 0 .......................-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGTGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [1-3] 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 983014-984264 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060132.1 Salmonella enterica subsp. enterica serovar London strain HA3-IN1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 983014 29 96.6 32 ...........................T. CCAGCGGAGAGCGAGCTATACCAGGCTCAATC 983075 29 96.6 32 ...........................T. TCCGGAAAATCTACCGTTCCAGGGCGGGGCCG 983136 29 96.6 32 ...........................T. GGAACCAAGTATACGCGTAGACAGCGTCAACG 983197 29 100.0 32 ............................. GAATTGGCGTATCTGTGTCTTGCCAGACAGGG 983258 29 100.0 32 ............................. CGTAGACCACCTCTTTCGATATGTGAGTGAAG 983319 29 100.0 32 ............................. GTTAGGGAAGGTACTCCTGGCTAATTCTTTTG 983380 29 100.0 32 ............................. ACATAATCCCCATGTACATAATTTATGCTCCG 983441 29 100.0 32 ............................. ATCCAGCAGAGCTACAGGAACGCCGCAAGGCC 983502 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 983563 29 100.0 32 ............................. TTAAATGCATCGCGATCCCTTGCAATTATAAC 983624 29 100.0 32 ............................. CCGGGATCCGTCATCGGTCGTGGTTCACTGCA 983685 29 100.0 33 ............................. GGCACGTTTACCGTTCCGGCTGGGGTTTATCGT 983747 29 100.0 32 ............................. GGCGGATCCACGATAATTTTGTCGTTATGTAT 983808 29 100.0 32 ............................. TCCCCCCGGAGGCTGTACCAAAAATCGTAGAA 983869 29 100.0 32 ............................. GCGCTATTGTATATCGACCATAAACATCGGCT 983930 29 100.0 32 ............................. TCCCTGCTGGCCGTTCTGGAATTGCGTAGCGC 983991 29 100.0 32 ............................. CCGGAGCCTGACCAGGATTTTTCCGCCGTGTA 984052 29 100.0 32 ............................. GAATTGCAGGAGTGGTTTATCGAGTGTTTACA 984113 29 100.0 32 ............................. AATCAACGGATCTTGCTAATGTAGTTTCTGCA 984174 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 984235 29 93.1 0 A...........T................ | A [984261] ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCTGGTTTGCCGACAGCAATAAAAAAGCGTTGTTGGCGGAGGTTGGTGTAGGCACGTTGGATCAGGCGATGATGGCGGTAATGCCATTTAAACATAACAACCTGCGGTTACTGGGTCTTAGCAACAAGATTTTACTGGCGGATGAGATCCATGCCTGTGATGCATGGATGTCCCGAATACTTGAAGGTTTGATCGAACGGCAGGCCAGTAATGGCAACGCCACTATTCTGTTATCTGCGACGCTATCGCAGCAGCAGCGAGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCAGGTCACACAAACAGAGCTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGTAGCGTAGATATTGGCTGGCTACATAGTGAAGAGTCGTGTCTTGAACGTATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATAC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: NA [55.0-48.3]%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], //