Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	CP009273	3,915,133	Δ4 bp	100%	coding (276‑279/816 nt)	atpB ←	F0 sector of membrane‑bound ATP synthase, subunit a

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3915132	1 (0.050)	34 (1.810)	32/260	NT	97.1%	coding (280/816 nt)	atpB	F0 sector of membrane‑bound ATP synthase, subunit a
	?	CP009273	3915137 =	1 (0.050)					coding (275/816 nt)	atpB	F0 sector of membrane‑bound ATP synthase, subunit a

TTCGTGAAGCCGCCGATGCCTTTCATTTTGATGCTGTAGAACAGAATCAGGATAAATACGCCCAGTGCCATAGACAGCGTTACGTTCACGTCCGCAGACGGAACCACACGCAGTGCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/3914885‑3915132 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCGAGAATGTACGCAGGTCCAGCTGAA  >  CP009273/3915137‑3915356                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      TTCGTGAAGCCGCCGATGCCTTTCATTTTGATGCTGTAGAACAGAATCAGGATAAATACGCCCAGTGCCATAGACAGCGTTACGTTCACGTCCGCAGACGGAACCACACGCAGTGCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATAAGGTTCATCAGGAATACCCAGACGAAGTACGTCAGGGCCAGCGGAGCAATAAGCTTGATTTTGACAGGGTATCATACACGCTCCCATTAAAAAAGCC                                                                                                                                                                                                    >  2:384123/1‑274                                     TAGAACAGAATCAGGATAAATACGCCCAGTGCCATAGACAGCGTTACGTTCACGTCCGCAGACGGAACCACACGCAGTGCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTT                                                                                                                                                                                                                         >  1:323255/1‑217                                             AATCAGGATAAATACGCCCAGTGCCATAGACAGCGTTACGTTCACGTCCGCAGACGGAACCACACGCAGTGCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGACTACCCAGCCGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCCATCGCGGTCTGAAACTTACCTGGCcacccgc                                                                                                                                                        >  1:103121/1‑267                                                                   GCCTTAGACATCGTTACGTTCACGTCAGCAGCCGGAACCACACGCAGTGCAGGCAGACCCATTACATGTTCAGCAATGTTCGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTA                                                                                                                                 <  1:384129/275‑1                                                                                             cgagcacgagaaCACACGAAGAGCAGTCAGACCCAGTACATGGTCAGAAATGGACGGCAGCAGGTCGATAGGCAGGAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGAC                                                                                                        <  2:103117/262‑1                                                                                                                   GCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGTCAGTAAATCCATCAGGTTCATCTGGAATACACAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGATTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAA                                                                                                                       >  1:25093/1‑237                                                                                                                           ACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGA                                                                                                                                                                                                  >  2:322742/1‑154                                                                                                                               AGTACATGTTCAGCAATGTACGGCAGTAGGTCGAGAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGNCACACCGCNGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGACAATATTa                                                                     >  1:274539/1‑274                                                                                                                               AGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCAC                                                                                                                                                                                              <  1:322748/154‑1                                                                                                                                                 TACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACT                                                                                                                                                                       >  2:349970/1‑159                                                                                                                                                    GGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTT                                                                                                                                                                                                                         >  2:272213/1‑106                                                                                                                                                     GCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACC                                                                                                                                                                   <  1:349976/159‑1                                                                                                                                                        GCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACG                                                                                                                                                                                                                     <  1:272218/106‑1                                                                                                                                                         CAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCA                                                                                                                                                                                                               >  1:363603/1‑111                                                                                                                                                           GGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAAAACATGGAGTCAATA                                                                        >  1:170631/1‑244                                                                                                                                                             TCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAA                                                                                                                                                                                                           <  2:363597/111‑1                                                                                                                                                               GATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAAAACATGGAGTCAATATTGA                                                                    <  2:170626/244‑1                                                                                                                                                                ATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTAT                                                                                                                                                                                                                             >  1:91504/1‑90                                                                                                                                                                    GCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTT                                                                                                                                                                                                                         <  2:91500/90‑1                                                                                                                                                                                TCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGTCAATATTGATTG                                                                 >  2:116238/1‑230                                                                                                                                                                                  AGGTTCATCAGGAATACCCAGACTAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTG                                                                                                                                          >  1:154879/1‑155                                                                                                                                                                                    GTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGTCAATATTGATTGTCCA                                                             <  1:116242/230‑1                                                                                                                                                                                      TCATCAGGCATACCCAGACTAAGAGCGTCAGAGGCAGCGGAGCAAGCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGACTTATTGGCTA                                                                                                                                      <  2:154874/155‑1                                                                                                                                                                                                  CCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTT                                                                                                                                                                                                                         >  1:334079/1‑60                                                                                                                                                                                                   agagaaaAAGATGGTCAGGGCCAGGNGAGCAATCACTTTGCTTTTGCCTTGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGGTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCGAGAATGTACGCAGGTCCAGCTGAA  <  2:274534/267‑1                                                                                                                                                                                                      GACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACG                                                                                                                                                                                                                     <  2:334073/60‑1                                                                                                                                                                                                       ACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAAC                                                                                                               >  1:381839/1‑161                                                                                                                                                                                                           AGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACA                                                                                                           <  2:381833/161‑1                                                                                                                                                                                                            GATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGC                                                                                                                                                                                                                    >  2:294744/1‑55                                                                                                                                                                                                                GTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACC                                                                                                                                                                                                                <  1:294750/55‑1                                                                                                                                                                                                                 TCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTG                                                                                                                                                                            >  2:85530/1‑90                                                                                                                                                                                                                     GGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAAC                                                                                                                                                                        <  1:85533/90‑1                                                                                                                                                                                                                           CGGAGCAATCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGA                                                                                                                                                                                                  >  2:278125/1‑58                                                                                                                                                                                                                                   TCAGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTT                                                                                                                                             >  2:52101/1‑103                                                                                                                                                                                                                                     AGCTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACC                                                                                             >  2:125378/1‑149                                                                                                                                                                                                                                       CTTGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGG                                                                                                                                         <  1:52104/103‑1                                                                                                                                                                                                                                         TGCTTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGA                                                                                         <  1:125382/149‑1                                                                                                                                                                                                                                            TTTTGCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTAC                                                                                                                                     >  1:8752/1‑102                                                                                                                                                                                                                                                GCCATGGTATCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTA                                                                                                                                 <  2:8752/102‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      TTCGTGAAGCCGCCGATGCCTTTCATTTTGATGCTGTAGAACAGAATCAGGATAAATACGCCCAGTGCCATAGACAGCGTTACGTTCACGTCCGCAGACGGAACCACACGCAGTGCAGGCAGACCCAGTACATGTTCAGCAATGTACGGCAGCAGGTCGATAGGCAGTAAATCCATCAGGTTCATCAGGAATACCCAGACGAAGATCGTCAGGGCCAGCGGAGCAATCAGCTTGCTTTTGCCATGGTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/3914885‑3915132 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TCTTTCACGCTACCATTAACAAAGCCGATCACCAGCTCAATCGCGGTCTGAAACTTACCTGGCACACCGCTGGTCGCCTTTTTGGCTACGCTACGGAATAAAACCAGGAACAACAGACCCAGCACCACCGAGAAGAACATGGAGTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCGAGAATGTACGCAGGTCCAGCTGAA  >  CP009273/3915137‑3915356

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.