Array 1 107548-106194 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRZK01000016.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST4038 ST4038_0016_0001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107547 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107486 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107425 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107364 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107303 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107242 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107181 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107120 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107059 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106998 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106937 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106875 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106772 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106711 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106650 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106589 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106528 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106467 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106406 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106345 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106284 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106223 29 96.6 0 A............................ | A [106196] ========== ====== ====== ====== ============================= ========================================================================== ================== 22 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACTACCGAGACCGAGACCGAGACCGAGACCGAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.12, 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: F [50.0-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5526-6347 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRZK01000041.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST4038 ST4038_0041_0001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5526 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 5587 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 5648 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 5709 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 5770 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 5832 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 5893 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 5954 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6015 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6076 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6137 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6198 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6259 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6320 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [2-8] 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], // Array 2 22480-22936 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRZK01000041.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST4038 ST4038_0041_0001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 22480 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 22541 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 22602 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 22663 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 22724 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 22785 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 22847 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 22908 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 8 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGCCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGAGTGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //