Array 1 223542-222475 **** Predicted by CRISPRDetect 2.4 *** >NZ_QSLS01000001.1 Salmonella enterica subsp. enterica serovar Indiana strain SJTUF13500 Scaffold1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 223541 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 223480 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 223419 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 223358 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 223297 29 100.0 32 ............................. ATTTTATTAGCGACTATCCAGGAATAAATTAC 223236 29 100.0 32 ............................. GGTGTTACTGATGGTGGGGCGCTGGATGAGGC 223175 29 100.0 32 ............................. AGCGCGTCAGGAACGTTTCTGGGGTGGCCTGA 223114 29 100.0 32 ............................. AGTGTCCACACTGCGGCGCTGAAAAATGCAAC 223053 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 222992 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 222931 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 222870 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 222809 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 222748 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 222687 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 222626 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 222565 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 222504 29 100.0 0 ............................. | A [222477] ========== ====== ====== ====== ============================= ================================ ================== 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 241149-240083 **** Predicted by CRISPRDetect 2.4 *** >NZ_QSLS01000001.1 Salmonella enterica subsp. enterica serovar Indiana strain SJTUF13500 Scaffold1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 241148 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 241087 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 241026 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 240965 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 240904 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 240843 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 240782 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 240721 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 240659 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 240598 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 240537 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 240476 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 240415 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 240354 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 240293 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 240232 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 240171 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 240110 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [8-0] 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], //