Array 1 948085-949577 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023309.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-4578 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 948085 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 948146 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 948207 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 948268 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 948329 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 948390 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 948451 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 948512 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 948573 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 948634 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 948695 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 948756 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 948817 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 948878 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 948939 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 949000 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 949062 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 949123 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 949184 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 949245 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 949306 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 949367 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 949428 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 949489 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 949550 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 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 [0-10] 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 2 965709-967673 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023309.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-4578 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 965709 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 965770 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 965831 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 965892 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 965953 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 966014 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 966075 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 966137 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 966198 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 966259 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 966320 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 966381 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 966442 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 966503 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 966564 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 966625 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 966686 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 966747 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 966808 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 966869 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 966930 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 966992 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 967095 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 967156 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 967217 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 967278 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 967339 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 967400 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 967461 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 967522 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 967583 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 967644 29 96.6 0 A............................ | A [967670] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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], //