Array 1 104604-103537 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDJ01000004.1 Salmonella enterica subsp. enterica serovar Bredeney strain 2012K-1362 NODE_4_length_386338_cov_4.41418, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 104603 29 100.0 32 ............................. GCCGATGACGGACTGGAGGGTGTAGAAGCTGA 104542 29 100.0 32 ............................. ATAAATAATCCGCGTTTCCTCGTCAGGTTCTT 104481 29 100.0 32 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAA 104420 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 104359 29 100.0 32 ............................. GCCGGGGTTTCCCAGAGGCATTCTGATGAAAG 104298 29 100.0 32 ............................. CGAATGCAGATGCCTCCCGTACTGCCGCCGGA 104237 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 104176 29 100.0 32 ............................. AAAACCCAGGAACGGCACCAAAATTTACACAT 104115 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 104054 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 103993 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 103932 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 103871 29 96.6 32 ............................T TAATCATTTTGTTTAAATCCCGGATCACCTCC 103810 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 103749 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 103688 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 103627 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 103566 29 96.6 0 ............T................ | A [103539] ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGAAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 122735-121364 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZDJ01000004.1 Salmonella enterica subsp. enterica serovar Bredeney strain 2012K-1362 NODE_4_length_386338_cov_4.41418, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 122734 29 100.0 32 ............................. AAATACTGGCCGTCATAACAGACTGAACTAAA 122673 29 100.0 32 ............................. CACATGGACATGATCCGACAGTTTCAGACCAT 122612 29 100.0 32 ............................. GCTTGCCTTTAAACCGCGTCACCAACGTAACC 122551 29 100.0 32 ............................. CCAACAACGGAATGGCCACCATTGAGCAGGAG 122490 29 100.0 32 ............................. GAACGCAACGATATAGAGTTAGTTGTCGTTGG 122429 29 100.0 32 ............................. TCCATCAATCACACGCTGGCGATCTTTCACTA 122368 29 100.0 32 ............................. TCATGCAGGGCGTGAGCATCAGGGCGACGAAC 122307 29 100.0 32 ............................. GGACGCTGGCATATACCAGCACCATGACATAG 122246 29 100.0 32 ............................. CGCAGATGCCCGGCGGCGGCCGTACTCCTGTA 122185 29 96.6 32 ..........T.................. AATGAGGTAGTCTTCACGCGTCATTGACTGGG 122124 29 100.0 32 ............................. GCCGCCCGAGAAAAAGCGGATCTGGATTACGC 122063 29 100.0 32 ............................. TCTGATATCGCTTCTTATGGACAAACGCGCGG 122002 29 100.0 32 ............................. CGCTGGTAGAGGCGCTGGAGAGGGCGCAGCAG 121941 29 96.6 32 .................A........... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 121880 29 100.0 32 ............................. CGGCTAAAAGTCGCGCTGGCAAGATGTCAGCG 121819 29 100.0 32 ............................. GAAGCGCCGCTGGGGCTGGTGGCGGCAGGGTT 121758 29 100.0 32 ............................. AGCCGTTCCCGTTGAATACGCCGGCGGTTATC 121697 29 100.0 32 ............................. GCGGATCAGATAGAAAAACTATTCCGACAGTT 121636 29 100.0 32 ............................. GTCAAGGTGTGTAATTGAGGCATCAAGTTCAG 121575 29 100.0 33 ............................. CCATTTGCTCGCCGTTCCGGCCGAGTTCTGAGG 121513 29 89.7 32 TGT.......................... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 121452 29 96.6 32 ............T................ TACCAACAATTCAGCGTTACGCCAACGGTAAC 121391 28 86.2 0 ...............A.AA......-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [63.3-70.0]%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], //