Array 1 109510-107894 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXTJ01000002.1 Salmonella enterica subsp. enterica serovar Newport strain NCTR-SF88 NODE_2_length_426756_cov_3.37273, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109509 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 109448 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 109387 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 109326 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 109265 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 109204 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 109143 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 109082 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 109021 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 108960 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 108899 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 108838 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 108777 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 108716 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 108655 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 108594 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 108533 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108472 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 108411 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 108350 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108289 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108228 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108167 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108106 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108045 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 107984 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107923 29 100.0 0 ............................. | A [107896] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 127365-126179 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXTJ01000002.1 Salmonella enterica subsp. enterica serovar Newport strain NCTR-SF88 NODE_2_length_426756_cov_3.37273, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 127364 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 127303 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 127242 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 127181 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 127120 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 127059 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 126998 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 126937 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 126876 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 126815 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 126754 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 126693 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 126632 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 126571 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 126510 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 126449 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 126388 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 126327 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 126266 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 126206 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: R [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //