Array 1 454342-455834 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBGA01000002.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain C12C1 NODE_2_length_634634_cov_25.0692, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 454342 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 454403 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 454464 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 454525 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 454586 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 454647 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 454708 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 454769 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 454830 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 454891 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 454952 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 455013 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 455074 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 455135 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 455196 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 455257 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 455319 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 455380 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 455441 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 455502 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 455563 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 455624 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 455685 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 455746 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 455807 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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], // Array 2 471966-473930 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBGA01000002.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain C12C1 NODE_2_length_634634_cov_25.0692, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 471966 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 472027 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 472088 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 472149 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 472210 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 472271 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 472332 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 472394 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 472455 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 472516 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 472577 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 472638 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 472699 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 472760 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 472821 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 472882 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 472943 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 473004 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 473065 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 473126 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 473187 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 473249 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 473310 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [473352] 473352 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 473413 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 473474 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 473535 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 473596 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 473657 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 473718 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 473779 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 473840 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 473901 29 96.6 0 A............................ | A [473927] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: 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 [1-13] 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], //