Array 1 110443-109828 **** Predicted by CRISPRDetect 2.4 *** >NZ_CASH01000036.1 Salmonella enterica subsp. enterica serovar Agona str. 37.F.02, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================================================== ================== 110442 29 100.0 32 ............................. GAGGTGCTGGCCGCGCTGGCCGCAGAAAAATT 110381 29 100.0 32 ............................. GTAGCCTTCATACACTTTAGCCAGGTTCCCTA 110320 29 100.0 32 ............................. AGCGAAAATAAAGACGACGAACTCGTCACAAC 110259 29 100.0 32 ............................. CGCACCTGCCTGGACATGACCCTGCCGGAGCT 110198 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 110137 29 100.0 32 ............................. CTGTGTGTTCTGTGCATAACGGTGTAACAGAG 110076 29 100.0 69 ............................. CTGGGAAGATTGGGCGCTTTCAATATCTTATAAACCGAATCCCGATGATCATGAATATTTCTGGCGCCA 109978 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 109917 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 109856 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================================================== ================== 10 29 100.0 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : AAAAATAGTCCTGAACGATAGCCCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGCGTCCTGAACGATAGCTCGCGCGGTCGTGTTCCCCGCGCCAGCGGGGATAAACCGCAGGAGTGGCTGGAGACTGTCGTCAAGCCTCGATTTTAACGGCAAGGTCGACAGGAGATACCACGTGTTCCCCGCGCCAGCGGGGATAAACCGATTTTAACGGCAAGGTCGACAGGAGATACCACGTGTTCCCCGCGCCAGCGGGGATAAACCGATTTTAACGGCAAGGTCGACAGGAGATACCACGTGTTCCCCGCGCCAGCGGGGATAAACCGTTTTATAACGACACTAAAACCCGCCAGTTATAGTGTTCCCCGCGCCAGCGGGGATAAACCGGATCATCAC # Questionable array : NO Score: 6.00 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.25, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [41.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 127888-126571 **** Predicted by CRISPRDetect 2.4 *** >NZ_CASH01000036.1 Salmonella enterica subsp. enterica serovar Agona str. 37.F.02, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================================================================================================= ================== 127887 29 100.0 32 ............................. GCGACTGGCTGGTCAGCACGCCGTTAGTCGCC 127826 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 127765 29 100.0 0 ............................. - Deletion [127737] 127736 28 69.0 32 -C.CA..TGC..GT............... CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 127676 29 100.0 32 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGGA 127615 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 127554 29 100.0 21 ............................. CGCACCTGCCGGGACATGACC Deletion [127505] 127504 29 62.1 32 C..CCGGAGCT.TT............... CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 127443 29 100.0 32 ............................. GCATCCCGGACAACAGGATCATCCCATTTATT 127382 29 100.0 21 ............................. CGCACCTGCCGGGACATGACC Deletion [127333] 127332 29 62.1 32 C..CCGGAGCT.TT............... CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 127271 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 127210 29 100.0 32 ............................. CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 127149 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 127088 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 127027 29 100.0 0 ............................. - Deletion [126999] 126998 27 65.5 32 --CGCA..T..CGT............... CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 126939 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 126878 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 126817 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 126756 28 82.8 129 ...............A.AA.....G-... TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAA 126599 29 55.2 0 A.CA.AAGG.A..TG.A.C.......T.. | ========== ====== ====== ====== ============================= ================================================================================================================================= ================== 22 29 90.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTATTTTATAAACAATGATATACGTTTGGT # Right flank : TTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGCGAAAACTTTATCTGGTCAGGGGAAATACCAGTGGTCGCGCCTGAAGCCTACGGCATTTTTGGCGGCCACGATGCGGAGCCGGACTCTATTTTGGATGAGGGCGTACTGATTTACCAATCGACAAAAGGATTAGTCATCATTACGGGATGCGGGCATCG # Questionable array : NO Score: 5.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.53, 5:0, 6:0.25, 7:-0.74, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [28-20] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [46.7-38.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //