Array 1 535787-537279 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTQ01000001.1 Salmonella enterica strain CFSAN071935 CFSAN071935_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 535787 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 535848 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 535909 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 535970 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 536031 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 536092 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 536153 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 536214 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 536275 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 536336 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 536397 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 536458 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 536519 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 536580 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 536641 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 536702 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 536764 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 536825 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 536886 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 536947 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 537008 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 537069 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 537130 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 537191 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 537252 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 553411-555314 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTQ01000001.1 Salmonella enterica strain CFSAN071935 CFSAN071935_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 553411 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 553472 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 553533 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 553594 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 553655 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 553716 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 553777 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 553839 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 553900 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 553961 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 554022 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 554083 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 554144 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 554205 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 554266 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 554327 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 554388 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 554449 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 554510 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 554571 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 554633 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 554736 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 554797 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 554858 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 554919 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 554980 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 555041 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 555102 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 555163 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 555224 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 555285 29 96.6 0 A............................ | A [555311] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], //