Array 1 8517-7268 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIK01000032.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8516 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8455 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8394 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8333 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 8272 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8211 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8150 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8089 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8028 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7967 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7906 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7845 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7783 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7722 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7661 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7600 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7539 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7478 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7417 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7356 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7295 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 8986-10950 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIK01000034.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8986 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 9047 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9108 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9169 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9230 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9291 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9352 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9414 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9475 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9536 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9597 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9658 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9719 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9780 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9841 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9902 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9963 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 10024 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 10085 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 10146 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 10207 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 10269 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 10330 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [10372] 10372 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10433 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10494 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10555 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10616 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10677 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10738 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10799 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10860 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10921 29 96.6 0 A............................ | A [10947] ========== ====== ====== ====== ============================= ================================= ================== 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], //