Array 1 289068-292065 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUVP01000003.1 Salmonella enterica strain CFSAN071993 CFSAN071993_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 289068 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 289129 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 289190 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 289251 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 289312 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 289373 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 289434 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 289495 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 289556 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 289617 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 289678 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 289739 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 289800 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 289861 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 289922 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 289983 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 290044 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 290105 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 290166 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 290227 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 290288 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 290349 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [290369] Deletion [290389] 290391 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 290452 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 290513 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 290574 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 290635 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 290696 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 290757 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 290818 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 290879 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 290940 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 291001 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 291062 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 291123 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 291184 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 291245 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 291306 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 291367 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 291428 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 291489 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 291550 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 291611 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 291672 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 291733 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 291794 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 291855 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 291916 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 291977 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 292038 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 50 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.03, 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 308611-311020 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUVP01000003.1 Salmonella enterica strain CFSAN071993 CFSAN071993_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 308611 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 308672 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 308733 29 100.0 32 ............................. CGCTACGCCCTGCCCGGTCTCGGTCTCGGTCT 308794 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 308855 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 308916 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 308977 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 309038 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 309099 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 309160 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 309221 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 309282 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 309343 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 309404 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 309465 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 309526 29 100.0 32 ............................. GGCTGACAAACGAGCAGGTTGAATTTGTCCTG 309587 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 309648 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 309709 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 309770 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 309831 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 309892 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 309953 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 310014 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 310075 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 310136 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 310198 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 310259 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 310320 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 310381 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 310442 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 310503 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 310564 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 310625 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 310686 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 310747 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 310808 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 310869 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 310930 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 310991 29 100.0 0 ............................. | A [311018] ========== ====== ====== ====== ============================= ================================= ================== 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], //