Array 1 214559-215805 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLR01000005.1 Salmonella enterica subsp. enterica serovar Newport strain INSP 15 NODE_5_length_241908_cov_5.27375, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 214559 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 214620 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 214681 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 214742 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 214803 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 214864 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 214925 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 214986 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 215047 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 215108 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 215169 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 215230 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 215291 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 215352 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 215413 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 215474 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 215535 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 215596 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 215657 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 215718 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 215778 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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], // Array 2 223750-225651 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLR01000005.1 Salmonella enterica subsp. enterica serovar Newport strain INSP 15 NODE_5_length_241908_cov_5.27375, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 223750 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 223811 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 223872 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 223933 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 223994 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 224055 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 224116 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 224177 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 224238 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 224299 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 224360 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 224421 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 224482 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 224543 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 224604 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 224665 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 224726 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 224787 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 224848 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 224909 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 224970 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 225031 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 225092 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 225153 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 225214 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 225275 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 225336 27 69.0 15 ................TTCT--.C.G.T. GCAACGACAGAATGC Deletion [225378] 225378 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 225439 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 225500 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 225561 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 225622 29 100.0 0 ............................. | A [225649] ========== ====== ====== ====== ============================= ================================ ================== 32 29 98.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [1-14] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-48.3]%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], //