Array 1 2212-1163 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHM01000479.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2095 NODE_479_length_2218_cov_3.14571, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 2211 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 2150 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 2089 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 2028 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1967 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1906 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1844 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1741 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1680 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1619 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1558 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1497 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1436 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1375 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1314 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1253 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1192 29 96.6 0 A............................ | A [1165] ========== ====== ====== ====== ============================= ========================================================================== ================== 17 29 99.6 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATCTC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.16, 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 [50.0-5.0]%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 1 607-29 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHM01000241.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2095 NODE_241_length_6270_cov_4.10359, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 606 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 545 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 484 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 423 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 362 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 301 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 240 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 118 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 57 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GAATTATTTCTGTGGCTGGGGTTTCGATT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [28.3-70.0]%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 34-855 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHM01000076.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2095 NODE_76_length_17617_cov_3.88869, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 34 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 95 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 156 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 217 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 278 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 340 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 401 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 462 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 523 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 584 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 645 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 706 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 767 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 828 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGATGCTGGTCTATACCGGCAACGAACGCGACG # 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: R [23.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 16988-17566 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHM01000076.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2095 NODE_76_length_17617_cov_3.88869, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16988 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17049 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 17110 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 17171 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 17232 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 17294 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 17355 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 17416 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 17477 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 17538 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================= ================== 10 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCGG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-35.0]%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], //