Array 1 24942-23847 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCIM01000123.1 Salmonella enterica subsp. enterica serovar Newport strain SE100 NEWPORT_S6_trimmed_contig_134, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 24941 29 100.0 32 ............................. TTGCGTATTTCGATTGTCTGGACATTTCGTAC 24880 29 100.0 32 ............................. TGCTTCCTGCTGATTTTCTGCGTCTACTGGAT 24819 29 100.0 32 ............................. GCAGAATATGATTTATATAGAACCAATGAACT 24758 29 100.0 32 ............................. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 24697 29 100.0 32 ............................. AATATCCACTTAAACACAACCATTATTCGCTA 24636 29 100.0 0 ............................. - Deletion [24608] 24607 29 93.1 32 ..T...A...................... CCGGCATCAGCGCCGATCCGTTCATAGTGCCC C [24603] 24545 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 24484 29 100.0 32 ............................. GTCCGTCAGGTTGGATCGGATGGCATTCCGGT 24423 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 24362 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 24301 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 24240 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 24179 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 24118 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 24057 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 23996 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 23935 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 23874 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.6 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.15, 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 [6-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 8487-9614 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCIM01000061.1 Salmonella enterica subsp. enterica serovar Newport strain SE100 NEWPORT_S6_trimmed_contig_68, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8487 29 100.0 32 ............................. CCAGCCTGTAGCGTGGGGGCGTTGGGTAGCCT 8548 29 100.0 32 ............................. CATCTTTTACGCATGTTGATGTGCGTTCAAAT 8609 29 100.0 32 ............................. AAATCGTCAATAAAATTATTGGCGCGCCATCC 8670 29 100.0 32 ............................. CGTTATAAGGCGGTAACGGCGAAAACATATGA 8731 29 100.0 32 ............................. CGCACGATCTACAGTCCAGCTATTCGGGATGG 8792 29 100.0 32 ............................. ATTTTTGCCTCCAGCGCGAACAGCATGGCGCC 8853 29 100.0 32 ............................. TCCGACTCGCCAACCTGGTCTATGTGCTCTAT 8914 29 100.0 32 ............................. CGTCGTCATTGCCGATCCTTTAACGTCCAAAT 8975 29 100.0 32 ............................. ATAATTTGCTGAACTACGTCCGTATTGAGCTG 9036 29 100.0 32 ............................. TGGCCGGAGCCTAAAGACGGGGAGCCGCGTTT 9097 29 100.0 32 ............................. GGGGGTGATAACCGCCTCGCTGAACGCTACGC 9158 29 100.0 32 ............................. AGTGAAAAATTGCGGTTCGTCCTCCTCATCGT 9219 29 100.0 32 ............................. ACTAACGAAAGATTAAACCAGCGCATTGAGTT 9280 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 9341 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 9402 29 100.0 32 ............................. CGCGCCCTGCGTGATTTTGAAAATCTGGTGGA 9463 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 9524 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 9585 29 93.1 0 A...........T................ | A [9611] ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATCCG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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], //