Array 1 109737-108182 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYDZ01000044.1 Salmonella enterica subsp. enterica serovar Newport str. RI_10P078 SEENP078_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109736 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 109675 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 109614 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 109553 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 109492 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 109431 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 109370 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 109309 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 109248 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 109187 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 109126 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 109065 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 109004 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 108943 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 108882 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108821 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 108760 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 108699 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 108638 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108577 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108516 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108455 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108394 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108333 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 108272 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 108211 29 100.0 0 ............................. | A [108184] ========== ====== ====== ====== ============================= ================================ ================== 26 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 127592-126406 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYDZ01000044.1 Salmonella enterica subsp. enterica serovar Newport str. RI_10P078 SEENP078_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 127591 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 127530 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 127469 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 127408 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 127347 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 127286 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 127225 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 127164 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 127103 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 127042 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 126981 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 126920 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 126859 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 126798 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 126737 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 126676 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 126615 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 126554 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 126493 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 126433 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //