Array 1 8739-10642 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIH01000075.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 8739 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8800 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 8861 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 8922 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 8983 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9044 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9105 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9167 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9228 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9289 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9350 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9411 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9472 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9533 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9594 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9655 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9716 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 9777 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 9838 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 9899 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 9961 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 10064 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10125 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10186 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10247 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10308 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10369 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10430 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10491 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10552 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10613 29 96.6 0 A............................ | A [10639] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], // Array 1 5612-7104 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIH01000210.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5612 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5673 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5734 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5795 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5856 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5917 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5978 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 6039 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 6100 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6161 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6222 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6283 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6344 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6405 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6466 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6527 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6589 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6650 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6711 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6772 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6833 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6894 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6955 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7016 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7077 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], //