Array 1 107023-106157 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYT01000023.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40935 N40935_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107022 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106961 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106900 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106838 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106735 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106674 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106613 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106552 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106491 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106430 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106369 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106308 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106247 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106186 29 96.6 0 A............................ | A [106159] ========== ====== ====== ====== ============================= ========================================================================== ================== 14 29 99.5 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCGCGCCAGCGGGGATAAACCGAGCCGTTTCCGCTAAATACCCCCGCAGTGAT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.21, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-35.0]%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_JYYT01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40935 N40935_contig_1, 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], // Array 1 1-393 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYT01000047.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40935 N40935_contig_47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 -............................ TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 61 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 122 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 183 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 244 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 305 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 366 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 95.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [-10.50,-8.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-6] 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 [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-204 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYT01000081.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40935 N40935_contig_81, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 23 79.3 32 ------....................... TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 56 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 117 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 178 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 93.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 5.51 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [5,1] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //