Array 1 1240442-1239607 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP006944.1 Mannheimia varigena USDA-ARS-USMARC-1312 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ====================================== ================== 1240441 32 100.0 35 ................................ GCTTAATTTCATTACGTTATTTAAACGGTCTTTAA 1240374 32 100.0 37 ................................ TAAATTCTAAATTTAAACATTTAGCCAATTTGTTAAG 1240305 32 100.0 36 ................................ AAGTTGATAGAGCACCTCTAAAAGTTCTGAGCGTAC 1240237 32 100.0 33 ................................ CTTTTAGTTTTGGTTGTTGATAAAAATTATTGA 1240172 32 96.9 34 ....................T........... AGGGTTGATTTCTTCGGGCATTTTTTGCGATAAG 1240106 32 100.0 34 ................................ GTTGCAAGAGATGTGGATTTTTCGGGCGTATATC 1240040 32 100.0 34 ................................ CCGAATGAAATTGCAAAGGTTGAAGTGGAAATTC 1239974 32 100.0 35 ................................ TTTTTAATGGGGCGACGTTTCCGACTCTCTCGCAG 1239907 32 100.0 35 ................................ TGCTGTATATTCATAACCGATACCAACTAACGGCA 1239840 32 100.0 38 ................................ ACGACGTGGATTTAAAACTGGCTGAATGTTTGAATGAG 1239770 32 100.0 34 ................................ CTGATTTTGGGCTTTTTTTTGCCCACTCTTTGGC 1239704 32 96.9 34 ...........G.................... ATCAATGGCTGTGGCGTTGAGTGTATTTTGTCAA 1239638 32 87.5 0 ......................A.C..A...T | ========== ====== ====== ====== ================================ ====================================== ================== 13 32 98.6 35 GCAGCTACCTTCGCGTAGCTGTGAGTTGAAAC # Left flank : CTCGCAAAGGCTTAACCATTCAACGTTATAAAGGATTAGGCGAGATGAACCCAGAGCAATTATGGGAAACCACAATGGATCCGGTCGCTCGCAAAATGTTGCAAGTAAACATTACCGATGCTATCGCCGCCGACAAACTTTTCAGCACCTTAATGGGCGATGAAGTTGAACCACGCCGTGATTTCATCGAGACTAATGCGTTATATGCCCAGATTGATGTGTAGTTTAAAATTGAGATCTTCTATTGAGAAATAGAGGATTTTTTATGAAAATTATCTAAGTATCCTACAAACACTATTGTAATATATGAGTTCGCTAACCTATAGTTCTCATTAAAATTGTAGTAGGTTAGCGATTTTACTTATTCTTTTATAATCAATATGTTATAAATTTCACCTTAAATAATTCTGATTCTGTTATACTAGAGCAACTCGTTGTATAAGAGCTTAGCGAAAATGGTACTAATAGGCCTTGTAGCACAATGATTTCTTATATAGGGA # Right flank : TTCCTATTTCTACCCCTTCTAAAATAAAACAAGGATTTTTGTTTTTCTATCCAAAATGTTACACTTCATTGAAATGAATCACTAAGGATTTTCAAAATGAGTAGTACAGAATTATTAGTCAATGTTACCCCAAGTGAAACAAGGGTTGCATTGGTTGAAAATGGGCTATTAAAAGAGTTGCATATTGAGCGTGAGGCCAAACGTGGCATTGTGGGGAATATTTACAAAGGGCGTGTAACTCGAGTATTGCCCGGAATGCAATCTGCTTTTGTGGATATTGGTTTAGAAAAAGCGGCTTTTTTGCACGCCTCCGATATTGTTTCTCATACTGAATGTGTTGATGAAAATGAGAAAAAGCAGTTTGTAGTAAAAGATATTTCAGAGTTAGTGCGTGAAGGGCAAGACATTGTTGTTCAAGTAGTAAAAGATCCGATTGGCACAAAAGGTGCGAGACTAACTACTGATATCACCTTGCCTTCTCGTTATTTGGTTTTTATGCC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 : GCAGCTACCTTCGCGTAGCTGTGAGTTGAAAC # 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 [8,7] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GCAGCTACCTTCGCGTAGCTGTGAGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.70,-3.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,5.28 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 1413180-1412216 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP006944.1 Mannheimia varigena USDA-ARS-USMARC-1312 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ==================================== ================== 1413179 32 100.0 35 ................................ CACAAATTTTTGCCGGTTCGGTATTTCTTCAACCA 1413112 32 100.0 33 ................................ AACGATTTTATTCAAGAGTGTTTTTTCTAAAAC 1413047 32 100.0 36 ................................ TATTACAAAAGGGCTTTTCAATGAAAAACGAAAAAA 1412979 32 100.0 35 ................................ TTTAATGCCGTAACGTTCGGGCAAATAACCTTTAC 1412912 32 100.0 33 ................................ CCTATGTTCTTGTATTTCTAAATTTTTAGCTTT 1412847 32 100.0 34 ................................ ATCATAGGTTTTAGGTTGTTTGATTTGCTCGCCA 1412781 32 100.0 34 ................................ TCTAAACAAGATATAAACAAGATCTTTATAAAAC 1412715 32 100.0 35 ................................ TCCTGAAATTGAAAATTTAATCAATACTGGAGGAT 1412648 32 100.0 34 ................................ TCTCAAGAGAAGATGAAGGAGCTTGGGTAATATA 1412582 32 100.0 36 ................................ GCAAGCGGTCTTTGTGTCCTGTGTCTATTTAATGGG 1412514 32 100.0 34 ................................ ATTTGATGAAGCCGACGTGTACGGCTTTGACGGC 1412448 32 100.0 34 ................................ ATCAATATGAACTTCAAAAATTGAATTCTCCTCG 1412382 32 100.0 36 ................................ ATCATCAGACGAAAGCTACCGTCAACTTTGGAATAG 1412314 32 100.0 35 ................................ AACCCCTTTTTCTCTATCTGTTAAAGACATAAAAA 1412247 32 68.8 0 ..G.TT....T.A...A..CA.A........T | ========== ====== ====== ====== ================================ ==================================== ================== 15 32 97.9 35 GCAGCCACCTCCGCGTGGCTGTGAGTTGAAAC # Left flank : GCAAGGCTATGATGATGTTGATTACCTACGATATTTCTTTCGATGACCCCGAAGGGCAGAAACGCCTTCGCCACATTGCCAAACATTGCCTCGACTACGGCGTTCGAGCCCAATATTCCGTATTCGAATGCGATGTTACCCCCGACCAGTGGGTTAAACTCAAACAAAAGCTGTTGGCGACTTATAACCCTGAGCTTGACAGCCTCCGCTTTTATCATCTCGGTAGTAAATGGCGTAACAAAGTGGAACACCACGGAGCGAAAAAAGCGGTGGATTTGTTCAAAGATACACTGATTTTGTAATATGTAGTACATCGCTAACCTGTTGTTCTCACTAAAACAGGGGGAGGTTAGCGATCATAAAAGTTCTTTAACAATCAATAAGTTATAAAAAGTATTGGCTCAATTCGAATTGTGCTATACTAAAAATACTTCCTATACAGGCGTTTAGCGAAAAGGCGCTAACAAAGCCTTGCAGCACAATGCTTTTGCATATAGGGA # Right flank : CTTGGCATTCAGATATAATTTCTTAGACATTTTGTAGCTATTTTCATGTCACGATAATTGGAAATATAAATAAAGGTGCATTGCTGCACCTTTATTACTATTATTGAACCGTTGCTTTAGTACGCGACTTTTTCACTTTGATTTCCGCTTTCGGCAATACTTCAATTCCCATTGGTGGGTTTTCAAGAGCAATTGCCAGCACTTCATCAATTGTTTCCACTACGTGAATGCTTAACGCGGCTTTGGCATTTTCCGGAATTTCCTCAAGGTCTTTTTCATTCTCTTTTGGAATAATAACTGTGGTAATACCACCACGGTGGGCCGCAAGTAATTTCTCTTTTAAGCCGCCGATTGGCAATATTTTTCCACGTAGGCTGATTTCGCCTGTCATCGCTACTTCTTTACGAACAGGGTTACCTGTTAGGCTCGAAATTAAAGCCGTACACATTGCGATACCCGCACTAGGGCCATCTTTCGGCGTTGCACCGTCTGGAACGTGA # 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 : GCAGCCACCTCCGCGTGGCTGTGAGTTGAAAC # 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: NA [6,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GCAGCCACCTCCGCGTGGCTGTGAGTTGAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-4.70,-3.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-53.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,4.91 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], //