Array 1 22245-27266 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDAB01000043.1 Propionibacterium freudenreichii strain CIRM-BIA 516, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================= ================== 22245 29 96.6 32 ............................G TCAGTCCCGTCAGGGCGAACGGCCTTGAAATA 22306 29 96.6 32 ............................G ACTGGAGATTCACCATGGACTGGACCAATCTG 22367 29 96.6 32 ............................T CATGAGTCAGAACCCCACTAGCTCGAGGAATG 22428 29 96.6 32 ............................G AAGCGGCCCAGGGCGTCTTCTTCGCTGGCGTA 22489 29 96.6 32 ............................G GAAATCACCTGCGAGGTCACCCACTGACACAG 22550 29 96.6 32 ............................G TCCCGCCACGTCTCGTCGGCACGGACCTGCCG 22611 29 100.0 32 ............................. CGAGGCCAGTGCATTGCATTCGACACGTGGGG 22672 29 96.6 32 ............................G GCGAAGTCTCCGTTCACGGTCACCTTGCACTC 22733 29 96.6 32 ............................G CAATTACCGAATTGAACCTGTTTGCCGTATGT 22794 29 100.0 32 ............................. CGGAACAAGCTGCACCAGCAGCTGACCCACCA 22855 29 96.6 32 ............................G ACCGACGCCAGGGCCGGACCGATCGCCGAGAA 22916 29 96.6 32 ............................T CAGCCCATTAGGGAATGGCGGCGTGAACGGCA 22977 29 96.6 32 ............................G CGCAGGTGAGCAGTCTGTGGGCTCGTCAGGAT 23038 29 96.6 32 ............................G TCGCGCCGGTCGGCCCGGGAGGTTCCCCTGGA 23099 29 96.6 32 ............................T GTGGTGGTTGCGACTGGCCAATCCACGGACGG 23160 29 96.6 32 ............................T GCTGTACAATGACGTGCGAGTTACATTGTTCC 23221 29 100.0 32 ............................. CTCGACCGCTCCCGGGACGTCCGGCCACAGCC 23282 29 96.6 32 ............................G GCTGATGGTAGTTCCGTGAGTGACTCCCAATC 23343 29 96.6 32 ............................G TCGTAATCTACTGCCACGGACTTGTAATAGCC 23404 29 96.6 32 ............................T TCTTCAACAACATCATGAAGACCGCCGGCGTC 23465 29 96.6 32 ............................G TCGAATCGTCGCGGACGATCTGGCCCTCAAGC 23526 29 100.0 32 ............................. AAGCACATGGCATGGCATAACGTGGCGAATCA 23587 29 96.6 32 ............................G TCGATGCACTGCGGAGCGAGATCAATTCATTG 23648 29 100.0 32 ............................. AAGGCAATGATTACCGTTGACACGGTACTCGG 23709 29 96.6 32 ............................G GCGTACGTTGAGCAAGTGGCAGAATGCACATG 23770 29 100.0 32 ............................. GTGGCGATCCGAAGCAACGATGTCATCTGGGG 23831 29 100.0 32 ............................. GCGAAGCAGGACAGCACGAGCAATTCCACGAC 23892 29 100.0 33 ............................. GACGATACGGTCGACGGCAGCTATGAGTGGTTC 23954 29 100.0 32 ............................. AGGGTGGGACCACTCGCCAGTCGTTGTTGCGG 24015 29 100.0 33 ............................. TCGATATCGCCGATCTGCACGGTGGTGTCGGTG 24077 29 96.6 49 ............................N NNNNNNNNNNNNNNNNNNGCTTCGCTGACCGACGCTGCGACTGTAGTGG 24155 29 100.0 32 ............................. GGTGGCCGGGAAAGTGACCGTGGAGTGGGAGC 24216 29 96.6 32 ............................T CGTCTCCTCCCAGCTCGACGTGTGGTGCAGCG 24277 29 100.0 32 ............................. CCCAATCGCGGCCAGTGGTATTCGCTGGGCCG 24338 29 96.6 32 ............................G CCCTGTGCAGTCCCGGACATGCCCGAGGCTGT 24399 29 96.6 32 ............................A GACCGCCCACCTGGACCAGTGAAGGTCAGGTG 24460 29 100.0 32 ............................. CTTTCCCCGCGTGTCTCGCCGCTTGTGGGACA 24521 29 100.0 32 ............................. AGGACGCCCTGGCCTGCACCTGCCGATGCGAT 24582 29 96.6 32 ............................T TGGTGGACTCCACACGCAGACCGCCCTTGCGG 24643 29 96.6 32 ............................G CTGCTCCTTGGATTGCACCGTCGGGATTGTTG 24704 29 100.0 41 ............................. CGNNNNNNNNNNTCCTGGGCGAACGGTAACGACTGGGCAAA 24774 29 96.6 32 ............................T TATTGCCGACGACATCATGAATGGTCGAGCGA 24835 29 96.6 32 ............................T TCTGCAATGGGACAGCAGAATGCTATCAGTAC 24896 29 100.0 32 ............................. CCGAAAGGAATAGCCATGGCCACAAAGACCGT 24957 29 100.0 32 ............................. GCTCTCACGAAATGGCGTGAGGTGAGCGGCGG 25018 29 100.0 32 ............................. GACTCAAGGACTCTCGTCATGCGCAACACGAG 25079 29 96.6 32 ............................T TCTGCAATGGGACAGCAGAATGCTATCAGTAC 25140 29 96.6 32 ............................T AATGCCGCCGTGCAAAGAACGGCCCTTGGGAT 25201 29 100.0 32 ............................. AACGGATATGTCATTCAATGTAAAGTCGTCAA 25262 29 96.6 32 ............................T ACGTCGCCGATTACGTTCAATGACAATGCAAC 25323 29 100.0 32 ............................. AGCTTGACATGACCCGCACTATCAATCAGCAG 25384 29 96.6 32 ............................G TCCTTGGCTACAAGTCATGGACGGCCTATGTG 25445 29 100.0 41 ............................. GNNNNNNNNNNTTCTTCGCTCATAATGTACCTCTCAGAATA 25515 29 100.0 32 ............................. CTCAGGCGGCGGCGCATCATTGCCAGAAGCGT 25576 29 96.6 32 ............................G GATTACGATCACTTTTATTGCTTGGCATAGCG 25637 29 96.6 32 ............................T CCCACGTCGCCATTACAGGATCCTCTGGTAGG 25698 29 96.6 32 ............................T GAGCGCTGCCACCTCGGGCACCTCGTCTGGAT 25759 29 96.6 32 ............................T TGCAGCGCTTCGAACTCGTCGCACGTCAAACC 25820 29 96.6 46 ............................T CAANNNNNNNNNNNNNNNNNACAGCCCTGTCCAATTCTGCAATGGG 25895 29 100.0 32 ............................. GACATTAACATGACTAACATTGACGACCGTGT 25956 29 96.6 32 ............................T TGGTGACGGCACAGATGATTGAGGCGGCAGTA 26017 29 96.6 32 ............................G TCTTTGTGACAAAATAGTAGACGGCCGCATAG 26078 29 96.6 33 ............................T ATCGAACGACTCAATATCTACAATGTCCCTGTA 26140 29 96.6 32 ............................G ACGTGGCGTCCTCGCGAGTCGACGTAGAAGCT 26201 29 96.6 32 .............G............... CGTCTACACTCATACTAACGCCCATAAACAGT 26262 29 96.6 32 ............................G TTGAATATCCCGGTCATCATGTCCAGGTCCTC 26323 29 100.0 32 ............................. TCACACTTCCTTGGTGATGTCATGCCTGGCTA 26384 29 96.6 32 ............................G CTGATGGCAGTTCCGTGAGTGACTCCACGTCA 26445 29 96.6 32 ............................T AATCTGCCAATGCCTCGTAAACGAATTAGAAT 26506 29 96.6 32 ............................T TGACGAAGGATTGTCCGGTGTTTCGTACCGGA 26567 29 100.0 32 ............................. ATCTTGCTAACCGACATTCTCCAAGGAGGAGA 26628 29 100.0 32 ............................. CCTATCCGCTCTATCATTCGCCACACCAATCC 26689 29 96.6 32 ............................G ACAGTCGAATGCACTGTGGGAGGTAATCGTGT 26750 29 100.0 32 ............................. GCCGGTAACCAATGGGGTGTACCGGTATGTAG 26811 29 100.0 32 ............................. GAGTGAGGAGATTGACTATATTAGGGGAGACG 26872 29 96.6 32 ............................T GGTGTGTTCAATTTTCTGGTTGGAGGCCGTGG 26933 29 96.6 32 ............................T TCTATTAGTTGCATGGAGAAGTTCACTTATTG 26994 29 96.6 32 ............................G CTATCGAGGCAGCGGCAAGGACGTGAGCCCGC 27055 29 100.0 32 ............................. AGACCGTCGTGCAACAGGCCCCTGTGATCGTT 27116 29 96.6 32 ............................T GATCTGAGGCAGATTCTGCAAGATCGCGTCCA 27177 29 100.0 32 ............................. CCGAAACTGACCATCCGCACCGCCATTGCCAT 27238 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================================= ================== 82 29 97.9 33 GTTCTCCCCGCATACGCGGGGGTGATCCC # Left flank : CGGCCGGTTTGCGCGGGTTCGTGACGCGGTGGCTGCTGGAGATCAGCCCGGGAGTTTTTGTGGGCAAAGTCTCTGCGCGGGTGCGTGAAGCCATTTGGGCGCGGGTTGAGGACCTCTGCCAGGACGGACGAGCAATTCTGGTGCACACGGCGCGGAACGAGCAGGGCTTTGACTTCAAAGTACATAGGCACGATTGGGAAGTTGTTGATCTGGAGGGCCTCAAACTGATGCGTCGCCCCAGAACCCCGGATCGTGCGTCCAGTGGCATGCGCTCCGGATGGAGCAACGCTGCCAAGCGACGACGGTGGGGTCGCTGACTCGGAACGTCCTCGTATCGGCCTTGAGCGCCAGTAACATGCGTAGTCAGAAAGTGTTCTCCCCGCATACGCGGGGGTGATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACGATCGTAGACCACTCGTCCAAAGT # Right flank : GT # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.51, # 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 : GTTCTCCCCGCATACGCGGGGGTGATCCC # 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 [3,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCATACGCGGGGATGATCCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.00,-12.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [21.7-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 36067-35283 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDAB01000042.1 Propionibacterium freudenreichii strain CIRM-BIA 516, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================================== ================== 36066 29 100.0 32 ............................. GACTGGGACACCGCCTGGCACGCCGGCGACTG 36005 29 96.6 32 ............................G ACCGCCGCACAGACGGCCATCGGCCTCATGGG 35944 29 96.6 32 ............................T GATTAACATCACCCGTAAATGTTGGCTTATCT 35883 29 100.0 52 ............................. GATCCGTCATATTCAGAATATGCTACCNNNNNNNNNNNNNNNNNNNNNNNNN 35802 29 93.1 32 N...........................T GAGCCCGATCGCCTACCGCGTCACCGAGTATG 35741 29 100.0 32 ............................. GGCGACCTTATTCTTATCACATGGGACGGATA 35680 29 100.0 32 ............................. TTACATCTGTCACGCGGGTTCCGTACGCCTGA 35619 29 96.6 32 ............................G TGGGCACCCGAGCAGGTCACGCTCCCGCTGGC 35558 29 100.0 32 ............................. CAGTGGCGCTGCCCAGCAAGCGGGCCTCGATC 35497 29 100.0 32 ............................. TGCACCGCCCCTGTCGCGATCGCCGGGACCGC 35436 29 100.0 32 ............................. GGTGGCGATCTGTCGATCGACCAGATCTGGAA 35375 29 96.6 33 ............................A TCGGTGATCGCCAGCAGGCGTCCGATGCGCTCA 35313 29 89.7 0 ................A.....G.T.... | A,T [35286,35293] ========== ====== ====== ====== ============================= ==================================================== ================== 13 29 97.6 34 GTTCTCCCCGCATACGCGGGGGTGATCCC # Left flank : GGGAGTGTTGCTTCGACGCTATGACACCACCGATCCCTGCCATCGGCTTTAGAGTCAGAAACATAATC # Right flank : TGTTTTTTCGGACACCTGATGTGGCATGGCCGGTGGGTCGTGCGGGAAGGTGTTGTCATGGGTGTGGATCCGGAGCAGGTGCCGCGGAGGCGGCGGAAGTTCGCTGCGGAGTACCGCCACGAGGCCGCGAGGCTGGTGCTGACGTCTGGTCGCACGATCGCGGACGTCGCGAAGGAATTGGGACTCGGTGAGCAGTTGCTGGGCAAATGGGTGCGTGCGCAGAAAGAGACAGCTGCTGGTGATTTGTTGAGCGATGACGAGCGGGCCGAGCTGAAACGGCTCCGGCGTGAGAACTCGCAGCTGCGGATGGACAACGAGTTCCTGGAAAAAGCGGCGGCCTTCTTCGCGTCGAAGCGTCGGTGAACGAGAAATACTCACTGATGCGCGCGGAGAAGGCACATTTCAGCGTCGTGCGAATGGCCCGGCTGCTGCATGTCTCACGGTCCGGGTATTACACGTGGGTGAAGACGAGCGAACACCCTGCCGCATCGCCTCGGGCG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.03, 8:1, 9:0.96, # 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 : GTTCTCCCCGCATACGCGGGGGTGATCCC # 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 [6,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCATACGCGGGGATGATCCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.30,-13.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-50.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1808-30 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDAB01000048.1 Propionibacterium freudenreichii strain CIRM-BIA 516, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================ ================== 1807 29 96.6 32 ............................T GTTGCTATTGCTGGCACGTGCGGGTCCAAAAG 1746 29 96.6 41 ............................G AAGACATAGAGACGGTTACGCCACTTGATNNNNNNNNNNGA 1676 29 100.0 32 ............................. CAACAGTAGCAAGGTTGAAGGCCTCGCCACCA 1615 29 96.6 32 ............................T CAATCGCGGCAATCCTGACGCCGGCGCTCCGT 1554 29 100.0 32 ............................. GGGGACCTTATTCTCATCACATGGTCAGGTTA 1493 29 96.6 33 ............................T CCGCCCAGCGTGCGACCGAACGTGGCGCCCTTG 1431 29 100.0 32 ............................. TGGCTGCCGAGGGTCTGGACGTGCAGGTCTCC 1370 29 100.0 32 ............................. CGTGCCCGTGGTGCCGCCTGCCTCGGCAAGCA 1309 29 96.6 32 ............................T ATTTCGAAGGTCGTCGGTTGAAAGTGGCATAT 1248 29 100.0 32 ............................. CCAGTCAGAGCTCACCATGGGCGAGCTGGTGA 1187 29 100.0 33 ............................. GTCGCTGAAATTTTGCTGGCTCCGTGGGTGTCG 1125 29 96.6 32 ............................G GCACTGCCGCTGGCCGGCTTCGGCTGGAGTGC 1064 29 96.6 32 ............................A TTGCCGGGGTGCCCCGGATGCCCGACGACGAG 1003 29 100.0 32 ............................. CACTCCAAATCTGCGCTACCCCCAGCGCATAC 942 29 100.0 46 ............................. GCGATTCGGGCTCATCGAATCACTGGGANNNNNNNNNNNNNNNNNC 867 29 100.0 32 ............................. GCTATCGCCGCCGTTGAAGCGTCCGCTGGTGG 806 29 96.6 32 ............................G CACCATGACGCCCGCCTGATCCCAGTCCATCG 745 29 100.0 48 ............................. CGCGCCGACAGGCGTTGCCCGGTCCGGCCNNNNNNNNNNNNNNNNNNG 668 29 100.0 32 ............................. GCTGCATCCCAGCTGCCAACCTCCCCTGGGTG 607 29 96.6 32 ............................T CGATGCATGAGGCGCAGACCTCCAGGGGGAGG 546 29 96.6 32 ............................G ATGGGGAATGTGGCGTTGTTGTCCTCGTCCAC 485 29 100.0 32 ............................. CACCCGACGTCACCGGGGAGGTTGTCCAGGAA 424 29 100.0 32 ............................. TTCAGGCGCCGGCACATCATTGCCAGAAACGT 363 29 100.0 32 ............................. CGCGCGTCAATAAAATGCTGTTCAATCTTCCA 302 29 100.0 32 ............................. GATGTCCTACCCCGAGCACCGGTATGAAACAT 241 29 96.6 32 ............................T AAAGGTTGCACACGTAGACAGGATCAGGAAGA 180 29 96.6 32 ............................T GCACGGAATCAATCGACGGCCTTGTCTAATTC 119 29 96.6 32 ............................G ACCAAGTATAATGCCGCCCACATGCCTATGAG 58 29 93.1 0 ..........................GG. | ========== ====== ====== ====== ============================= ================================================ ================== 29 29 98.2 34 GTTCTCCCCGCATACGCGGGGGTGATCCC # Left flank : | # Right flank : CGATGTCAAGGCGTCGAAGCAACATGGGGC # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.80, # 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 : GTTCTCCCCGCATACGCGGGGGTGATCCC # 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 [6,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCATACGCGGGGATGATCCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.30,-13.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [20.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //