Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_000913	3,931,183	(G)7→10	intergenic (‑90/‑133)	ravA ← / → kup	hexameric AAA+ MoxR family ATPase, putative molecular chaperone/potassium transporter

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3931176	4 (0.070)	44 (0.710) +GGG	35/188	0.4	91.6%	intergenic (‑83/‑140)	ravA/kup	hexameric AAA+ MoxR family ATPase, putative molecular chaperone/potassium transporter
	?	NC_000913	3931177 =	4 (0.060)					intergenic (‑84/‑139)	ravA/kup	hexameric AAA+ MoxR family ATPase, putative molecular chaperone/potassium transporter

GAACTGCTCAGGCGGGAAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3931044‑3931176 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAAGACTA  >  NC_000913/3931177‑3931311                                                                                                                                      |||                                                                                                                                        GAACTGCTCAGGCGGGAAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAAGGGGGG                                                                                                                                      >  1:747885/1‑139   ACTGCTCAGGCGGGAAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAAGGGGGGGG                                                                                                                                    >  2:897018/1‑139     TGCTCAGGCGGGAAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAAGGGGGGGGGt                                                                                                                                  >  2:628625/1‑138                 AAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTT                                                                                                                        <  2:806186/136‑1                 AAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTT                                                                                                                        >  1:806186/1‑136                   ATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGC                                                                                                                   <  2:512387/139‑1                               AATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTG                                                                                                       >  1:1421922/1‑139                                ATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGG                                                                                                      <  2:1547812/139‑1                                        GGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTT                                                                                              >  2:285432/1‑139                                          GTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAG                                                                                            >  2:577411/1‑139                                             AGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAG                                                                                         >  1:46450/1‑139                                              GCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGT                                                                                        >  2:1315474/1‑139                                                        AGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGC                                                                              >  1:1561680/1‑139                                                          TGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCG                                                                            >  2:1473262/1‑139                                                           GGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGT                                                                           <  2:970767/139‑1                                                            GCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTT                                                                          >  2:735062/1‑139                                                            GCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTT                                                                          >  2:154467/1‑139                                                             CGTCCTTTCTTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTA                                                                         <  2:786466/139‑1                                                             CGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTA                                                                         <  1:154467/139‑1                                                               TCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAAT                                                                       >  1:870286/1‑139                                                               TCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAAT                                                                       <  2:870286/139‑1                                                                 CTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCG                                                                     <  1:285432/139‑1                                                                    TCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAG                                                                                            >  2:1149490/1‑113                                                                    TCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAG                                                                                            <  1:1149490/113‑1                                                                                   CGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAG                                                                                                                    >  1:809284/1‑74                                                                                   CGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAG                                                                                                                    <  2:809284/74‑1                                                                                            CGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCC                                          <  1:628625/139‑1                                                                                                         TTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCA                             <  2:747885/139‑1                                                                                                         TTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAG                                                                                                                    >  1:1374512/1‑52                                                                                                         TTCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAG                                                                                                                    <  2:1374512/52‑1                                                                                                         TTCTGGCTGGTGGGTAAAATAATCTCAAA‑GGGGGGGGGTAATTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCA                             <  2:306556/139‑1                                                                                                          TCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGG                                                                                                      <  1:1119689/65‑1                                                                                                          TCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGG                                                                                                      >  2:1119689/1‑65                                                                                                          TCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGC                                                                                                                   <  2:1611627/52‑1                                                                                                          TCTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGC                                                                                                                   >  1:1611627/1‑52                                                                                                           CTTGCTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACA                           <  2:46450/139‑1                                                                                                               CTGGTGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATT                       >  2:169416/1‑139                                                                                                                   TGGCTAAAATAGTCTCAAAGGGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAAT                                                                       <  2:137357/88‑1                                                                                                                   TGGCTAAAATAGTCTCAAAGGGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAAT                                                                       >  1:137357/1‑88                                                                                                                   TGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGC                              <  2:164818/128‑1                                                                                                                   TGGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGC                              >  1:164818/1‑128                                                                                                                    GGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTA                                                                         >  1:1033883/1‑84                                                                                                                    GGCTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTA                                                                         <  2:1033883/84‑1                                                                                                                      CTAAAATAGTCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATT                <  1:1473262/139‑1                                                                                                                               TCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAA       >  1:1257218/1‑139                                                                                                                               TCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAA       >  2:1558047/1‑139                                                                                                                               TCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGG                                     >  2:1158739/1‑109                                                                                                                               TCTCAAA‑GGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGG                                     <  1:1158739/109‑1                                                                                                                                     aaaGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAAGACTA  >  2:1017713/4‑139                                                                                                                                     aaGGGGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAAGACTA  >  1:1589988/3‑139                                                                                                                                      |||                                                                                                                                        GAACTGCTCAGGCGGGAAATTCTTTCCGCTAATAAATGAGGGTGAGCCATAATGAAGTGGCGTCCTTTCGTCAAAAGTTCTGCGTAAATTGCGAGTATAGACGTTTCTTGCTGGTGGCTAAAATAGTCTCAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3931044‑3931176 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGGGGGTATTTTTCTTTGAGCCAGGTTAATGTGGCCGCATTTAGGAGTACGATTTTGCCGTTAATCGTGCATACTGTGCGCTTTTTTGTGGGCCAAGGGACTAAGCACACATTTCATATTTCAACGAAAGACTA  >  NC_000913/3931177‑3931311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ 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.