Array 1 46831-45764 **** Predicted by CRISPRDetect 2.4 *** >NZ_SJRM01000005.1 Salmonella enterica subsp. enterica serovar Indiana strain CH31 Scaffold4_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 46830 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 46769 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 46708 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 46647 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 46586 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 46525 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 46464 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 46403 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 46342 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 46281 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 46220 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 46159 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 46098 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 46037 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 45976 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 45915 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 45854 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 45793 29 100.0 0 ............................. | A [45766] ========== ====== ====== ====== ============================= ================================ ================== 18 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-70.0]%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 64377-63372 **** Predicted by CRISPRDetect 2.4 *** >NZ_SJRM01000005.1 Salmonella enterica subsp. enterica serovar Indiana strain CH31 Scaffold4_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 64376 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 64315 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 64254 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 64193 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 64132 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 64071 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 64010 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 63948 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 63887 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 63826 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 63765 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 63704 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 63643 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 63582 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 63521 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 63460 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 63399 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%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], //