Array 1 3-518 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHTP01000022.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19447 SEEN447_30, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC G [20] 65 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 126 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 187 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 248 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 309 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 370 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 431 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 491 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 96.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-63.3]%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 8463-8979 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHTP01000022.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19447 SEEN447_30, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8463 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 8524 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 8585 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 8646 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 8707 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 8768 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 8829 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 8890 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 8951 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCAAATGGTCGTTTTTTTAAATTTTGGTTTGTCATGAATGGTGTTGATGCTGAGAGATAAAGTATGATGAAATGAAGTAGTTAAATTTAATTAATTAATGGTATTCATGGAAATGGATGTAGATAGAGAAGCTGCAAAGATTTTAGTGAATCTAATGTAATAACTTCTCTATACAACGGAGTTAGAATAATACCCGTTATCCAACCAATCCAAAACGTTTACTATAATAGCTAGCTTCTCCGGCATCAGATACCAGCACAACCTGTCCGGAAGGGCGATGGTGGCGTTTTCTGAAACAGGCTAATGTTTCCTCATCTGGACATTGGAATGTACCAGAATTTTTTTGCCACCATGATTTTCGGACGGATAAGCGACTTTTTTCCCAGCAGAAATCTATTTCATCAACTAAAGGGCGTAGCTGTCCATTAATGTCTTTTCTGGCGAGATAAACATCAACACTCTCTTCACCCAGACGGGTAGAAAATTCTCTATCTTTATCC # Right flank : | # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 99823-100219 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHTP01000034.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19447 SEEN447_46, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 99823 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 99884 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 99945 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 100006 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 100067 29 100.0 33 ............................. TCATGTCTTTCGACTAAATACTACCGCGACAAC 100129 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 100190 29 100.0 0 ............................. | C [100195] ========== ====== ====== ====== ============================= ================================= ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : AGATATGAAAAACGTAAAAAT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [73.3-28.3]%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 108843-108038 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHTP01000007.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19447 SEEN447_17, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 108842 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 108781 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108720 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108659 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108598 29 93.1 33 ..........................A.C GGGGCGAAAACGCGCTTTGAAATTCGCACGGTC 108536 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108475 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 108414 29 100.0 74 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCATGTGTTCCCCGCGCCAGTTCTTCAGCTGGCAACGACAGAATGC 108311 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 108250 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108189 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 108128 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 108067 29 100.0 0 ............................. | A [108040] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.2 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGCAGACGGCAGCAGCGTGAAACACGTCAGTAT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAGAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.98 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.23, 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: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-26.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //