Array 1 495-39 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWJV01000565.1 Salmonella enterica subsp. enterica serovar Newport str. CFSAN000835 CFSAN000835__contig_566, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 494 29 100.0 32 ............................. CGTCACGGAATATTTCTACAGGCAGGCTACTG 433 29 100.0 32 ............................. CCTGAGTAAGAGTGAACACTATGGCTTTCATA 372 29 100.0 32 ............................. ACCGAAATGGCAACAAAAGAAGAGAATGTAGC 311 29 100.0 32 ............................. GTCAGCATTCTCTTGCTCCAGTTGTTGTTTTC 250 29 100.0 32 ............................. AACAGGTAACACCATCGGTTGTGCTGGCACTG 189 29 100.0 32 ............................. TGGTCTCGCGCCGCCTGGAATCAATTAATAAT 128 29 100.0 32 ............................. CGAATTGCAGGACGAAATTACAGAACGGGTTA 67 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCGCGGT # Right flank : GCCAAAAAGCCGGAAGCAACTGTATCGTACATAGTGTTC # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [35.0-3.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 734728-735944 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWJV01000001.1 Salmonella enterica subsp. enterica serovar Newport str. CFSAN000835 CFSAN000835__contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 734728 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 734789 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 734850 29 100.0 32 ............................. CCGGCGTGTGTTGTTGAGGATCAGTCTGGAGA 734911 29 100.0 32 ............................. CGGGCCATGTTCTTTTCCCTCTAAAAAATCCG 734972 29 96.6 32 ............................C GTTGCTCAAAAAACTGAACGAGGGTAACTACC 735033 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 735094 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 735155 29 100.0 1 ............................. G Deletion [735185] 735185 29 86.2 32 T.TC..A...................... CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 735246 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 735307 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 735368 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 735429 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 735490 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 735551 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 735612 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 735673 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 735734 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 735795 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 735856 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 735917 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.2 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.13, 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 [1-6] 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 752192-753014 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWJV01000001.1 Salmonella enterica subsp. enterica serovar Newport str. CFSAN000835 CFSAN000835__contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 752192 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 752253 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 752314 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 752375 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 752436 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 752497 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 752558 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 752619 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 752680 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 752741 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 752802 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 752863 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 752924 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 752985 29 93.1 0 A...........T................ | A [753011] ========== ====== ====== ====== ============================= ================================ ================== 14 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATCCG # 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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], //