Array 1 323-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLF01000030.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50420 N50420_contig_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 322 28 96.6 32 -............................ CCGCTGACGCACTGGATCAACCTGACGCAACG 262 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 201 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 140 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 79 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TGAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [35.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-393 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLF01000032.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50420 N50420_contig_32, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 28 96.6 32 -............................ AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 61 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 122 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 183 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 244 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 306 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 367 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 7 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16539-16146 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLF01000031.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50420 N50420_contig_31, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16538 28 96.6 32 -............................ TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16478 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16417 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16356 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16295 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16234 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16173 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 95.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.85, # 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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 161522-160596 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLF01000012.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50420 N50420_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 161521 28 96.6 32 -............................ GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161461 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161400 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161339 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161277 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161174 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161113 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161052 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 160991 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 160930 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 160869 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160808 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160747 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160686 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160625 29 96.6 0 A............................ | A [160598] ========== ====== ====== ====== ============================= ========================================================================== ================== 15 29 99.3 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.19, 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 [50.0-0.0]%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 1003-59 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLF01000009.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50420 N50420_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1002 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 941 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 880 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 819 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 758 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 697 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 636 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 575 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 514 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 453 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 392 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 331 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 270 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 209 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 148 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 87 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [43.3-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //