Array 1 1035-2938 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYTL01000016.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_4346 NODE_16_length_109068_cov_2.62114, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1035 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1096 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1157 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1218 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1279 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1340 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1401 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1463 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1524 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1585 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1646 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1707 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1768 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1829 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1890 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1951 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 2012 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 2073 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 2134 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 2195 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 2257 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 2360 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2421 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2482 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2543 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2604 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2665 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2726 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2787 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2848 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2909 29 96.6 0 A............................ | A [2935] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.6 34 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 88332-89824 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYTL01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_4346 NODE_17_length_104925_cov_2.14573, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88332 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88393 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88454 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 88515 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 88576 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 88637 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 88698 29 100.0 31 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCC 88759 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 88820 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 88881 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 88942 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 89003 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 89064 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 89125 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 89186 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 89247 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 89309 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89370 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 89431 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89492 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89553 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 89614 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 89675 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 89736 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 89797 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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], //