Array 1 427454-428700 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMG01000004.1 Salmonella enterica subsp. enterica serovar Newport str. CVM80_2288 contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 427454 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 427515 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 427576 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 427637 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 427698 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 427759 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 427820 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 427881 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 427942 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 428003 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 428064 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 428125 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 428186 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 428247 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 428308 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 428369 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 428430 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 428491 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 428552 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 428613 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 428673 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 436645-438424 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMG01000004.1 Salmonella enterica subsp. enterica serovar Newport str. CVM80_2288 contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 436645 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 436706 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 436767 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 436828 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 436889 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 436950 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 437011 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 437072 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 437133 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 437194 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 437255 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 437316 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 437377 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 437438 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 437499 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 437560 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 437621 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 437682 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 437743 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 437804 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 437865 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 437926 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 437987 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 438048 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 438109 27 69.0 15 ................TTCT--.C.G.T. GCAACGACAGAATGC Deletion [438151] 438151 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 438212 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 438273 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 438334 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 438395 29 100.0 0 ............................. | A [438422] ========== ====== ====== ====== ============================= ================================ ================== 30 29 98.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.04, 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], //