Array 1 80163-79584 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWQZ01000014.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024723 CFSAN024723_contig0013, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 80162 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 80101 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 80040 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 79979 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 79918 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 79857 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 79796 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 79735 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 79674 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 79613 29 100.0 0 ............................. | A [79586] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGTGGTTTAATAGTATCGGGCAGCATTTTACCG # Right flank : TTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: NA [1-2] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [48.3-41.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1667-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWQZ01000019.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024723 CFSAN024723_contig0018, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1666 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 1605 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 1544 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 1483 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 1422 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 1361 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 1300 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 1239 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 1178 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 1117 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 1056 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 995 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 934 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 873 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 812 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 751 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 690 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 629 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 568 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 507 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 446 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 385 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 324 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 263 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 201 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 140 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GCCTAATGGTGATGGGGCGTTTAATCTTATCTCGTGTTCCCCGCGCCAGCG # 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 [36.7-70.0]%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 21271-18212 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWQZ01000019.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024723 CFSAN024723_contig0018, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 21270 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 21209 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 21148 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 21087 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 21026 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 20965 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 20904 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 20843 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 20782 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 20721 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 20660 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 20599 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 20538 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 20477 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 20416 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 20355 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 20294 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 20233 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 20172 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 20111 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 20050 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 19989 29 100.0 74 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCCGTGTTCCCCGCGCCAGTAATTTGACGTATCCGTGAACCAGTT 19886 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 19825 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 19764 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 19703 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 19642 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 19581 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 19520 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 19459 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 19398 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 19337 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 19276 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 19215 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 19154 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 19093 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 19032 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 18971 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 18910 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 18849 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 18788 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 18727 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 18666 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 18605 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 18544 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 18483 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 18422 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 18361 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 18300 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 18239 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ========================================================================== ================== 50 29 99.3 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.04, 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: 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], //