Array 1 1063480-1066538 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039270.1 Salmonella enterica subsp. enterica serovar Senftenberg str. CFSAN004025 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1063480 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 1063541 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 1063602 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 1063663 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 1063724 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 1063785 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 1063846 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 1063907 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 1063968 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 1064029 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 1064090 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 1064151 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 1064212 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 1064273 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 1064334 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 1064395 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 1064456 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 1064517 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 1064578 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 1064639 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 1064700 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 1064761 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 1064822 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [1064842] Deletion [1064862] 1064864 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 1064925 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 1064986 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 1065047 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 1065108 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 1065169 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 1065230 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 1065291 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 1065352 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 1065413 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 1065474 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 1065535 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 1065596 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 1065657 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 1065718 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 1065779 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 1065840 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 1065901 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 1065962 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 1066023 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 1066084 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 1066145 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 1066206 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 1066267 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 1066328 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 1066389 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 1066450 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 1066511 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 51 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.02, 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 [1-8] 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 1083084-1085493 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039270.1 Salmonella enterica subsp. enterica serovar Senftenberg str. CFSAN004025 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1083084 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 1083145 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 1083206 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 1083267 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 1083328 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 1083389 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 1083450 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 1083511 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 1083572 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 1083633 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 1083694 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 1083755 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 1083816 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 1083877 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 1083938 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 1083999 29 100.0 32 ............................. CATGGTCTGTACCGCCTGCATTTCTGCATTGT 1084060 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 1084121 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 1084182 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 1084243 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 1084304 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 1084365 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 1084426 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 1084487 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 1084548 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1084609 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 1084671 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 1084732 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 1084793 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 1084854 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 1084915 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 1084976 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 1085037 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 1085098 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 1085159 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 1085220 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 1085281 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 1085342 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 1085403 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 1085464 29 100.0 0 ............................. | A [1085491] ========== ====== ====== ====== ============================= ================================= ================== 40 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-46.7]%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], //