Array 1 987131-988623 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP014965.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC 2010K-1587 isolate USDA-ARS-USMARC-1908 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 987131 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 987192 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 987253 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 987314 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 987375 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 987436 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 987497 29 100.0 31 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCC 987558 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 987619 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 987680 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 987741 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 987802 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 987863 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 987924 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 987985 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 988046 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 988108 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 988169 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 988230 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 988291 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 988352 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 988413 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 988474 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 988535 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 988596 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], // Array 2 1004756-1006537 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP014965.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC 2010K-1587 isolate USDA-ARS-USMARC-1908 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1004756 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1004817 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1004878 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1004939 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1005000 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1005062 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1005123 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1005184 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1005245 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1005306 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1005367 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1005428 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1005489 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1005550 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1005611 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1005672 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1005733 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1005794 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1005856 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1005959 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1006020 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1006081 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1006142 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1006203 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1006264 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1006325 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1006386 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1006447 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1006508 29 96.6 0 A............................ | A [1006534] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 [0-3] 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], //