Array 1 8888-10852 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJK01000044.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8888 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8949 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9010 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9071 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9132 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9193 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9254 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9316 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9377 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9438 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9499 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9560 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9621 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9682 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9743 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9804 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9865 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9926 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 9987 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 10048 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 10109 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 10171 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 10232 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [10274] 10274 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10335 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10396 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10457 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10518 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10579 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10640 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10701 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10762 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10823 29 96.6 0 A............................ | A [10849] ========== ====== ====== ====== ============================= ================================= ================== 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], // Array 1 5315-6624 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJK01000165.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5315 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5376 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5437 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5498 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5559 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5620 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5681 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5742 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5803 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5864 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 5925 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 5986 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6047 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6109 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6170 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6231 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6292 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6353 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6414 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6475 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6536 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6597 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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], //