Array 1 16294-17605 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQA01000020.1 Salmonella enterica subsp. enterica serovar Hartford strain NY_FSL C7-142 NODE_20_length_45141_cov_49.5685_ID_2963, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16294 29 100.0 32 ............................. CGAGCGCCGGAGTTGATTAGTGGTGCCGGGGA 16355 29 100.0 33 ............................. CTGATCGCCGGATACGTCGCGAGCGACATCGAG 16417 29 100.0 32 ............................. CCCTTGAAGCGGCTCAATTTCACCATGACGCA 16478 29 100.0 32 ............................. CGTTATAAGGCGGTAACAGCGAAAACGTATGA 16539 29 100.0 32 ............................. GCTCCCGACTCCTGAATGAAGGTGTCGATTAT 16600 29 100.0 32 ............................. ATCTGGAATTGTTGACGGTGGCTGATTTAGCA 16661 29 100.0 32 ............................. TCGCCTTTTCCAGTCGCCTGCACGCTATATCA 16722 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 16783 29 100.0 32 ............................. TTTAAATAGTGGGGTGATCCCGGTGAAAATCC 16844 29 100.0 32 ............................. GTTCAATTCGGTTTCCACTTCCCGCTACATCG 16905 29 100.0 32 ............................. ATTATCTCTCACTTGCTTCAATAAGCCCCCGC 16966 29 100.0 32 ............................. TCGGCAGCTACTTCAGTGTTAGGCGGCATCCA 17027 29 100.0 32 ............................. CCACGGCGCAGGAAATCTCCTTTGTAACAGGG 17088 29 96.6 32 .G........................... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 17149 29 96.6 32 .............C............... TGTAATCTCTCTATTTATAATCTGTATTGTAC 17210 29 96.6 32 .............C............... CAACTGGTGATACGGTTATGTCTCGTATCGCA 17271 29 96.6 32 .............C............... GTGATCGAGTATTGCTCGTTGTCGGCGTGGGC 17332 29 96.6 32 .............C............... AGTAATCAACTCAATGCGCTCACAACGCAATG 17393 29 96.6 32 .............C............... CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 17454 29 93.1 32 ............TC............... TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 17515 29 96.6 32 .............C............... AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 17576 29 89.7 0 A...........TC............... | A [17602] ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.1 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCCTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-8] 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 [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1164-221 **** Predicted by CRISPRDetect 2.4 *** >NZ_NBQA01000006.1 Salmonella enterica subsp. enterica serovar Hartford strain NY_FSL C7-142 NODE_6_length_262115_cov_52.8202_ID_2935, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1163 29 100.0 32 ............................. GAAAAGAAGAAATAATGAGATTTGCCCCGGAA 1102 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1041 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 980 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 919 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 858 29 100.0 32 ............................. AATATCTATAACGGAGCCGTTTTCATTGAGCG 797 29 100.0 32 ............................. TGGATATTCATTGAGCGCTGGAAATTCAAAAA 736 29 100.0 32 ............................. ACAACAACATATTGGTAAATCAGGATACTGGC 675 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 614 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 553 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 492 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 431 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 370 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 309 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 248 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGATGACCCGTCCTGAATAGCGTTGACACGTTCCAGACTTAAATCCGGAGAACGTGATGATGACTGAGTTCAAACGCACCCAACGCGATTATCCTCTATCCTTTAAAATAGCCGTCGTTGAGCAGGTCGA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //