Array 1 9004-10968 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIL01000040.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 9004 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 9065 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 9126 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 9187 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 9248 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 9309 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 9370 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 9432 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 9493 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9554 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9615 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9676 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9737 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9798 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9859 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9920 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9981 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 10042 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 10103 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 10164 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 10225 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 10287 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 10390 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 10451 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 10512 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10573 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10634 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10695 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10756 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10817 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10878 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10939 29 96.6 0 A............................ | A [10965] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 5503-6812 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIL01000087.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5503 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5564 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5625 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5686 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5747 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5808 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5869 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5930 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5991 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6052 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6113 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6174 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6235 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6297 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6358 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6419 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6480 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6541 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6602 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6663 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6724 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6785 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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], //