Array 1 997512-999004 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023288.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-3835 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 997512 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 997573 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 997634 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 997695 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 997756 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 997817 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 997878 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 997939 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 998000 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 998061 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 998122 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 998183 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 998244 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 998305 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 998366 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 998427 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 998489 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 998550 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 998611 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 998672 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 998733 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 998794 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 998855 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 998916 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 998977 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 1015136-1017100 **** Predicted by CRISPRDetect 2.4 *** >NZ_AP023288.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain L-3835 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1015136 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1015197 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1015258 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1015319 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1015380 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1015441 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1015502 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1015564 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1015625 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1015686 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1015747 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1015808 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1015869 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1015930 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1015991 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1016052 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1016113 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1016174 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1016235 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1016296 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1016357 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1016419 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1016522 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1016583 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1016644 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1016705 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1016766 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1016827 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1016888 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1016949 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1017010 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1017071 29 96.6 0 A............................ | A [1017097] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //