Array 1 11670-13024 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIPUG010000041.1 Salmonella enterica subsp. enterica serovar Newlands strain ZC-926 NODE_42, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 11670 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 11731 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 11792 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 11853 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 11915 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 11976 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 12037 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 12098 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 12159 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 12220 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 12281 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 12342 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 12403 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 12464 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 12526 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 12587 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [12629] 12629 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 12690 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 12751 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 12812 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 12873 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 12934 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 12995 29 96.6 0 A............................ | A [13021] ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.1 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGTGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.06, 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 [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], // Array 1 5723-7947 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIPUG010000087.1 Salmonella enterica subsp. enterica serovar Newlands strain ZC-926 NODE_91, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5723 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 5784 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5845 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 5906 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 5967 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 6028 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 6089 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 6150 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 6211 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 6272 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 6333 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 6394 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 6455 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 6516 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 6577 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 6638 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 6699 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 6760 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 6821 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6882 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6943 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 7004 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 7065 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7126 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7187 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7248 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7309 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7371 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7432 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7493 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7554 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7615 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7676 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7737 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7798 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7859 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7920 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 37 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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], //