Array 1 8958-7465 **** Predicted by CRISPRDetect 2.4 *** >NZ_LKJD01000047.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 2013LSAL04524 scaffold_50, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8957 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8896 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8835 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8774 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 8713 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 8652 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8591 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8530 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8469 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8408 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8347 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8286 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8225 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8164 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 8103 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 8042 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7980 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7919 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7858 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7797 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7736 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7675 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7614 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7553 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7492 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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], // Array 1 8665-10568 **** Predicted by CRISPRDetect 2.4 *** >NZ_LKJD01000079.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 2013LSAL04524 scaffold_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 8665 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8726 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 8787 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 8848 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 8909 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 8970 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9031 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9093 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9154 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9215 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9276 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9337 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9398 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9459 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9520 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9581 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9642 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 9703 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 9764 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 9825 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 9887 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 9990 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10051 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10112 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10173 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10234 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10295 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10356 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10417 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10478 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10539 29 96.6 0 A............................ | A [10565] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //