Array 1 89741-90682 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMF01000019.1 Salmonella enterica subsp. enterica serovar Newport str. CVM75_1280 contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 89741 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 89802 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 89863 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 89924 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 89985 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 90046 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 90107 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 90168 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 90229 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 90290 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 90351 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 90412 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 90473 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 90534 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 90595 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 90655 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 98627-100345 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMF01000019.1 Salmonella enterica subsp. enterica serovar Newport str. CVM75_1280 contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 98627 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 98688 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 98749 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 98810 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 98871 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 98932 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 98993 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 99054 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 99115 29 100.0 32 ............................. AAACCCGCGCCCGTGAGCTCGATATGCTCGGC 99176 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 99237 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 99298 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 99359 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 99420 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 99481 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 99542 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 99603 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 99664 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 99725 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 99786 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 99847 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 99908 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 99969 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 100030 27 69.0 15 ................TTCT--.C.G.T. GCAACGACAGAATGC Deletion [100072] 100072 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 100133 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 100194 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 100255 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 100316 29 100.0 0 ............................. | A [100343] ========== ====== ====== ====== ============================= ================================ ================== 29 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], //