Array 1 8925-10889 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIU01000090.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM135, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 8925 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8986 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9047 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9108 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9169 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9230 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9291 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9353 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9414 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9475 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9536 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9597 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9658 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9719 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9780 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9841 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9902 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9963 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 10024 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 10085 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 10146 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 10208 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 10311 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10372 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10433 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10494 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10555 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10616 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10677 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10738 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10799 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10860 29 96.6 0 A............................ | A [10886] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 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 7799-6306 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIU01000134.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM135, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 7798 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 7737 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 7676 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 7615 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 7554 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 7493 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 7432 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 7371 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 7310 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 7249 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 7188 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 7127 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7066 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7005 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6944 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6883 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6821 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6760 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6699 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6638 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6577 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6516 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6455 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6394 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6333 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [9-1] 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], //