Array 1 149541-148249 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXC01000005.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain CVM N38855 N38855_contig_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 149540 28 96.6 32 -............................ TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 149480 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 149419 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 149358 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 149297 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 149236 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 149175 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 149114 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 149053 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 148992 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 148930 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 148827 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 148766 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 148705 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 148644 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 148583 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 148522 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 148461 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 148400 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 148339 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 148278 29 96.6 0 A............................ | A [148251] ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.13, 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 [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%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 51-628 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXC01000084.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain CVM N38855 N38855_contig_84, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 51 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 113 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 174 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 235 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 296 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 357 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 418 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 479 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 540 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 601 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 10 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGCCCCGATAGAGACGCTTCTGTAGTCACTGGCAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.92, # 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 [2-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-63.3]%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], //