Array 1 43-205 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000018.1 Streptococcus uberis strain CAIM 1894 contig_018, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ================================== ================== 43 32 100.0 33 ................................ TGGAGTAACAGTAACTAATGTTGGTGGGACTGG 108 32 100.0 34 ................................ AGCTTTTGTAGCTAATTCTTTGGCAGATTCCTCT 174 32 93.8 0 ............................C..G | ========== ====== ====== ====== ================================ ================================== ================== 3 32 97.9 34 GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Left flank : GGTGATCTTAATTGAACGTAACATGAATTGAATCAATACAACG # Right flank : GCGTCATCTTTCCCTATTTCACTAAAATTTGCACCGAACCTTCAATTATTAAACTGTTGCCTTTTCAGGGATTACCCTAATTCTTGATCATCTCACTTGCCCTGGGGAATACGACCTGACGACGCAGTTTATTTTAGATGGACAGGTGTCGTTTGAGGATCAGACTGTCAATGATTTAAAAACGACAAGTGATTATCCCTTCAGAGAAGAGCAGGTGGTTATTTCTAACAAATACAATCAATTAATTCAGAGTAAGAAAATTGGCAAAGAGGCTTTTTCAAAGATGACCTATATGACTATACCTTGTTGGCAGATATGACTTGTCAAGTGAAGCGCCAGCCATTACGCCAAACGAGCGAGTAGTCATAAAGAATTAGAAAATAGTTTTGGCTTTGAAATTCTTGGGGATGGCTATCATTATCTTATCGCGATCCAGTCAGAAGACATTCTAAGTGGAGACAAATTGTATCACATTGATGGGGTTAAATGTCGTGGCAAAA # Questionable array : NO Score: 8.26 # Score Detail : 1:0, 2:3, 3:3, 4:0.90, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 : GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [8,8] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-4.80,-5.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [48.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.64 Confidence: HIGH] # Array family : NA // Array 1 24151-23720 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000025.1 Streptococcus uberis strain CAIM 1894 contig_025, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 24150 36 100.0 31 .................................... GATGTAAACATGGCTAGTTTACCATCAAAGA 24083 36 100.0 30 .................................... TGATAGATTTGTCTCAAGAATTCATCATAG 24017 36 100.0 30 .................................... TGCTATTGAGCAGCGATTCAAAGTTCTAGG 23951 36 100.0 28 .................................... TGCCTAATTTTAACGTCATCAAGTACAT 23887 36 100.0 30 .................................... AATTAGGAGAGAGAGAAGAGGTTTTACTCT 23821 36 97.2 30 .......................G............ AGCAGAGAAAAACTTTGTTTCAGTCTTTTT 23755 36 77.8 0 .......................G.....GTTTCCT | ========== ====== ====== ====== ==================================== =============================== ================== 7 36 96.4 30 GTTTTAGAGCTGTGTTGTTTTGAATGGTTCCAAAAC # Left flank : GAATGGTTCCAAAACAGTCCACAAAACTGCCTGATGGCACTC # Right flank : TGTCTTTTTCTCAATCTATGAGTGTGTATTTGGTGGCTTGTGTTTGCTTGCGAGAAGGTCTCTAAAGTAGGGTTGTTGCCGAAATGGGAGTTCTTGTATTTAGTGGTTTGTCATGTTAGAATAAAGAAGTGTTAGTTTTTGAAATCTGTCATTAATGAAAAAGAGGTAGCTATGGAGAAAACATTTTTTATGATTAAACCTGATGGGGTTGAACGTGGTTTAATTGGTCAAGTTTTGTATCGTATTGAGCGTCGTGGTTTTCGTCTTGAGAAATTAGAGCTTTGTCAGGCTAGTTCAGATTTACTAAGGCAACATTATAGTGCGCTGGTCGATAAACCTTTCTATCCTGAGTTAGAAGCTTATATGACAAAGGGACCTATTTTAATTGGGATTATTTCAGGCAATCGTGTTGTTTCGTCTTGGCGTATGATGATGGGTGTTACAAATCCTAAGGATGCTTTGCCGGGTAGTATTCGTTGTGACTTTGCTCAGGCTCCCGG # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.82, 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 : GTTTTAGAGCTGTGTTGTTTTGAATGGTTCCAAAAC # 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 [Repeat is AT rich:63.89%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC with 98% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-4.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 1179-87 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000054.1 Streptococcus uberis strain CAIM 1894 contig_054, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ====================================== ================== 1178 32 100.0 34 ................................ TTCTGGACCTCGTTCACTTTCAGCGGGGCTATCT T [1156] 1111 32 93.8 34 ..............................TC CGCTGGTGGCGTTTGGTATTTGACTAGCAAGGCA 1045 31 96.9 32 ......-......................... AAGGCCTGGTTGATTGTCGCGATGTACTCGCT 982 32 100.0 33 ................................ CAGGCACCAGACTTCCGGCTGTCGCGTTGCTGT 917 32 100.0 34 ................................ CGGTACATTATTAGTTTACCGCGTTTATTTTATT 851 32 100.0 35 ................................ TGTATCTACGTCAATGTCTCGTCTTATCCAGTTGT 784 32 100.0 33 ................................ AAGCTACCCTCTAGACCTGTCAGCCAGCGATTG 719 32 93.8 35 ..............................TA CGTTTCAGCGGGGCTATCTTGGCCCTGCGGACAAT 652 32 100.0 34 ................................ TATTGACGTCCACCTGCTCCCAGTCCTCGCGGGT 586 32 100.0 34 ................................ TAGTGCGTTAGTCATGTTTGGTCTCCTTGTTTCT 520 32 100.0 36 ................................ TCACTTATGGAACTAGAGGAGGACGAACACATTATC 452 32 100.0 33 ................................ ATGACGAATAAGCACTTTTCGTCTGCTGTCGCT 387 32 100.0 34 ................................ CCGGTAGACGTTGACCACAAAGCGCTTGATTGTG 321 32 100.0 35 ................................ CGTTGTTGGAATAGTGTTAGCTGCGTCGGCCTTGC 254 32 100.0 38 ................................ CTTGTCGTTGTCAATCCACCCGACCTGTGCCAAGTTCG 184 30 93.8 36 ......-.......-................. ATCCAAAGGTGCAGCTAATATGATGCGTGAGCTGCT 118 32 100.0 0 ................................ | ========== ====== ====== ====== ================================ ====================================== ================== 17 32 98.7 34 GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Left flank : GTGAGTGGATTGAAATAGCTTGGCCACCGGGTGCCAAACCTCGCCCCAGC # Right flank : TGGAAAAGAGAGGTTGAATTATGAGAGCAACTGTTGCATCAGCAACGGGCGTCGTTAAGGTTGCTCGACTTCTTGCAGAAAGTTATG # Questionable array : NO Score: 9.20 # Score Detail : 1:0, 2:3, 3:3, 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 : GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [8,8] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-5.50,-4.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [11-10] Score: 0/0.41 # AT richness analysis in flanks prediction: F [53.3-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,4.5 Confidence: HIGH] # Array family : NA // Array 1 113800-114164 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000004.1 Streptococcus uberis strain CAIM 1894 contig_004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 113800 33 97.0 33 T................................ CGTTGTTGGACGTCGTGCTTGCGTTCTTGCCGA 113866 33 100.0 32 ................................. TACTGTCGCGGCACTGTTATAGGTCCGGCCAA 113931 33 97.0 34 T................................ TTCCACCAAGGCCCGGACCTTGGCCTGGTAGTTG 113998 33 100.0 34 ................................. TTCTGTAAAACCACCAGTGGTTTTCGATTGAATC 114065 33 100.0 34 ................................. TCACGCGCTCCCGCTCCTTTTTGTCTTTCGTTGT 114132 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= ================================== ================== 6 33 99.0 34 CGTCTCACCCTACACGGGTGAGTGGATTGAAAT # Left flank : GCGAAAGCCATTCGAGGCGAGCTAGATTCTTATCCACCATTCTTGATTTAGGTGATATTTATGATGGTTTTAATTACGTACGATGTTAATACGGAAACGGCAGCGGGCCGAAAAAGGCTGAGACATGTTGCCAAGCTATGTGTTGATTATGGGCAACGAGTGCAACATTCTGTGTTTGAATGTTCGGTAACGCCCGCAGATTTTGTGGAGATAAAAGCTAAACTAAGTAACATTATCGATATGGAGACTGACACTATTCGTTTTTACCGCTTAGGCAAGCATTGGCAAAATCGGGTGGAAACACTTGGCCGAGATGATTCTTATGACCCTGATGTGGGGCTTCTCCTTCTTTAAAAACTTCCTTGCGAACCTCGCTTACACATCAAAAGTCGGGAGTTTCGCGCGTGACTATAGGAAAAATAGGCAAAATGGAACTGTTTTTAGCCAAAAAAACAAGTGTAAAACAGCTCTAGCTTGCTTAAAACAGTGTCTACTGGCGC # Right flank : TAAGGTCGTCATAGATGACCTCGGTCAACTGACCAGTCTCACCCTA # Questionable array : NO Score: 9.21 # Score Detail : 1:0, 2:3, 3:3, 4:0.95, 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 : CGTCTCACCCTACACGGGTGAGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: R [8,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-7.70,-8.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [60.0-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.77,1.15 Confidence: MEDIUM] # Array family : NA // Array 1 90696-90995 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000009.1 Streptococcus uberis strain CAIM 1894 contig_009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 90696 36 100.0 30 .................................... GGTGTTCAGAGGTGGTCAGTGGATTTATGT 90762 36 100.0 29 .................................... TTTAGAGGATTCTTTAGTAAAAAATAGCT T [90773] 90828 36 100.0 30 .................................... CAATTCCTTTATCTAAAGTTACTCGAACTA 90894 36 100.0 30 .................................... AGTCCACAAAAACTGCCCTGATGGCACTCT 90960 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 5 36 100.0 30 GTTTTAGAGCTGTGTTGTTTTGAATGGTTCCAAAAC # Left flank : GAAAAACCAGAAGTCAAATCTATGATTGACAAGTTAGTTGCCACCATTACGGAATTATTAGTATTTGAATGCCTAGAAAATGAACTAGATTTAGAGTATGATGAAATTACATTGTTGGAATTAATTAAAGCATTAGGAATAAAAATTGAAACGCAGAGTGATACGATTTTTGAAAAATGCTTTGAAATATTACAGGTATATCATTATTTAAGTAAGAAAAAACTACTTGTATTTATTAATGTTGGTTCTTATCTAACTAGAGAAGAGTATGAGAAATTACTTGAATATATTCATCTGTCACAACTGACAGTATTATTTTTAGAATCTAGAAAAGTTTATGAATTTCCACAATATGTACTAGACCATGATTATTTTCTGATATCTGAAAATATGGTATAATAGTAGTAAGGAAAGCTATTAAATAAGGAATCATTAAAACTGAAGTCATGCTGAGATAAATGGCGCGATTACGAAATTTTGTAGAAAAAAATATTCTACGA # Right flank : TGTCGATAACTGCCA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTTTTAGAGCTGTGTTGTTTTGAATGGTTCCAAAAC # 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 [Repeat is AT rich:63.89%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC with 98% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-4.70,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [14-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-13.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.41 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 937-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRQN01000057.1 Streptococcus uberis strain CAIM 1894 contig_057, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ===================================== ================== 936 32 100.0 34 ................................ TGATGAAGTGGTTATTTAGAAACATACATACAAT 870 32 100.0 34 ................................ ACGCAGGGCAATATACTGTTAAACCTAGCATTAT 804 32 100.0 33 ................................ AGGAAACAGTAGTCAGGTTAGAGTAAGGCTTGC 739 32 100.0 31 ................................ GATGCTGTAAGTGCAAGTAGTCATCATCTTA 673 31 78.1 36 ......-.....GAC..........A.TG... GATTACTTATAAATCAAAAATATACCTCATGACGCT T [653] 605 32 100.0 28 ................................ TTGATGAAGCGCATAAACTTATTACGCT 545 32 100.0 33 ................................ CGTTGAATTGAGATTTAAAGCGGAATTTATAGA 480 32 100.0 33 ................................ ATCATAGACTTTCTCCACCTAAAAATGATCATT 415 32 100.0 33 ................................ CAATAGGATTTGAAAAGAAATCTTTGCCTGATT 350 32 100.0 37 ................................ CAAGAAACTTGAAAAGAACAAGCGAATGGCTGAAAAT 281 32 100.0 34 ................................ ATTTCAACCACATCAACCAATCCATCAACGATAA 215 32 100.0 33 ................................ TTTATACCTCTATCTATTTACTTCCTGGTGAAA 150 32 100.0 34 ................................ ATCTAAAGCATCTTTAGATAAGACATGACGCATT 84 32 100.0 0 ................................ | ========== ====== ====== ====== ================================ ===================================== ================== 14 32 98.4 33 GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Left flank : CCCTACACGGGTGAGTGGATTGAAATCGTTGATGAAGCGCATAAACTTATTAGTGCTT # Right flank : TTTTGTTGTAAATTGTCTCAGTATATTGAGCTAGGTCTCACCCTACACGGTGA # Questionable array : NO Score: 9.18 # Score Detail : 1:0, 2:3, 3:3, 4:0.92, 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 : GTCTCACCCTACACGGGTGAGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [8,8] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-5.50,-4.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [51.7-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.78,4.5 Confidence: HIGH] # Array family : NA //