Array 1 162783-160818 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHT01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM29, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162782 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162721 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162660 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162599 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162538 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162477 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162416 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162354 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162293 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162232 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162171 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162110 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162049 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161988 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161927 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161866 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161805 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161744 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161683 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161622 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161561 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161499 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161396 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161335 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161274 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161213 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161152 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161091 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161030 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160969 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160908 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160847 29 96.6 0 A............................ | A [160820] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5617-7109 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHT01000048.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM29, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5617 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5678 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5739 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5800 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5861 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5922 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5983 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 6044 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 6105 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6166 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6227 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6288 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6349 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6410 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6471 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6532 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6594 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6655 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6716 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6777 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6838 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6899 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6960 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7021 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7082 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], //