Array 1 960893-961958 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050779.1 Salmonella enterica subsp. enterica serovar Indiana strain SI85 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 960893 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 960954 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 961015 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 961076 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 961137 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 961198 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 961259 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 961320 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 961382 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 961443 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 961504 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 961565 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 961626 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 961687 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 961748 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 961809 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 961870 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 961931 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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: NA [71.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 978500-979566 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050779.1 Salmonella enterica subsp. enterica serovar Indiana strain SI85 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 978500 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 978561 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 978622 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 978683 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 978744 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 978805 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 978866 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 978927 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 978988 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 979049 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 979110 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 979171 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 979232 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 979293 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 979354 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 979415 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 979476 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 979537 29 100.0 0 ............................. | A [979564] ========== ====== ====== ====== ============================= ================================ ================== 18 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-50.0]%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], //