Array 1 17-1981 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJE01000064.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM199, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 17 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 78 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 139 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 200 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 261 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 322 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 383 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 445 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 506 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 567 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 628 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 689 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 750 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 811 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 872 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 933 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 994 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1055 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1116 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1177 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1238 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1300 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1403 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1464 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1525 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1586 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1647 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1708 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1769 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1830 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1891 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1952 29 96.6 0 A............................ | A [1978] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AATATATAGTTTTAGTG # 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: R [23.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28-1520 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDJE01000514.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM199, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 28 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 89 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 150 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 211 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 272 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 333 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 394 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 455 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 516 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 577 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 638 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 699 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 760 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 821 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 882 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 943 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1005 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1066 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1127 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1188 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1249 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1310 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1371 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1432 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1493 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTTTATAAACAATTATATCCGTTTAGTG # 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: R [35.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //