Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	REL606	1,916,224	IS1 (–) +9 bp		[pykA]	[pykA]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	REL606	1916224 =	1 (0.020)	62 (0.960)	50/200	0.3	98.3%	intergenic (+127/‑1)	yebK/pykA	predicted DNA‑binding transcriptional regulator/pyruvate kinase
	?	REL606	1973272 =	NA (NA)					noncoding (1/768 nt)	IS1	repeat region
*	?	REL606	= 1916232	1 (0.020)	68 (1.060)	53/200	0.2	98.4%	coding (8/1443 nt)	pykA	pyruvate kinase
	?	REL606	2034326 =	NA (NA)					noncoding (768/768 nt)	IS1	repeat region

CGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1916133‑1916232 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTC  >  REL606/2034326‑2034422                                                                                                                                                                                                       CGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGG                                                                                                  <  2:1391381/101‑1    ATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTA                                                                                               >  2:270651/1‑101      GAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAAT                                                                                             <  1:1284143/101‑1       AGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATG                                                                                            <  2:223047/101‑1       AGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATG                                                                                            <  1:737185/101‑1         ATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGAC                                                                                          >  2:414037/1‑101          TTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACT                                                                                         <  1:1362287/101‑1             ATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCA                                                                                      >  1:1685939/1‑101             ATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCA                                                                                      <  2:359175/101‑1                TATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGCTTCAGTCAACGGAGCATTACATGTCCAGGGTAATGACTCCAACT                                                                                   >  1:536063/1‑101                 ATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTT                                                                                  <  1:1022995/101‑1                 ATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTT                                                                                  <  1:683270/101‑1                   CGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTAT                                                                                <  2:1360787/101‑1                     CCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTG                                                                              >  2:1623402/1‑101                       ATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGAT                                                                            <  1:1534517/101‑1                       ATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGAT                                                                            >  1:1186948/1‑101                         CGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAG                                                                          >  2:357033/1‑101                           CGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTG                                                                        >  1:26921/1‑101                           CGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTG                                                                        <  2:1516975/101‑1                            GGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGT                                                                       <  2:1505882/101‑1                             GCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTT                                                                      >  2:763482/1‑101                              CGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTT                                                                     >  2:829603/1‑101                              CGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTT                                                                     >  2:739787/1‑101                              CGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTT                                                                     >  1:1685287/1‑101                                TTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTA                                                                   >  2:127607/1‑101                                TTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTA                                                                   >  1:921806/1‑101                                 TATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                                  >  2:526911/1‑101                                 TATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                                  >  2:760001/1‑101                                     TCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTC                                                              <  1:815830/101‑1                                       ATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAG                                                            >  2:1025758/1‑101                                            GATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAAT                                                       <  1:1576541/101‑1                                            GATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAAT                                                       <  1:636817/101‑1                                             ATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATG                                                      >  1:257494/1‑101                                             ATTTCATGCTCAAGCAACACCTGGTTGTTTCAGTCAACGGCGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATG                                                      >  2:773256/1‑101                                              TTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGC                                                     <  1:1242181/101‑1                                               TTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCC                                                    <  1:723178/101‑1                                                TCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCC                                                   <  2:1678336/101‑1                                                 CATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCAAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCG                                                  >  1:1111833/1‑101                                                  ATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGA                                                 >  2:314396/1‑101                                                    GTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATG                                               <  2:580460/101‑1                                                         AGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTT                                          <  2:1650767/101‑1                                                           CAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGT                                        >  2:678497/1‑101                                                            AACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTC                                       <  1:1228140/101‑1                                                            AACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTC                                       <  2:833152/101‑1                                                             ACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCA                                      >  2:902363/1‑101                                                              CACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCAT                                     <  1:964343/101‑1                                                              CACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATCCCCGATGACTTTGTCAT                                     <  2:1685933/101‑1                                                                CCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGC                                   >  2:238153/1‑101                                                                 CTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCA                                  >  2:1221045/1‑101                                                                  TGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAG                                 <  2:956150/101‑1                                                                    GTTGTTTCAGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT                               >  1:23523/1‑101                                                                            AGTCAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGAT                       <  1:829608/101‑1                                                                               CAACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTT                    >  2:463809/1‑101                                                                                AACGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTG                   >  1:777013/1‑101                                                                                  CGGAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAG                 >  2:519648/1‑101                                                                                    GAGTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAA               >  1:501499/1‑101                                                                                      GTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  1:1570377/1‑101                                                                                      GTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  1:489643/1‑101                                                                                      GTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  1:1142037/1‑101                                                                                      GTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  1:742872/1‑101                                                                                      GTATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  1:992493/1‑101                                                                                      GTATTACATGGCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCAGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG             >  2:1385870/1‑101                                                                                       TATTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGA            >  2:580596/1‑101                                                                                         TTACATGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACA          <  1:357033/101‑1                                                                                              TGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGAC     <  2:992488/101‑1                                                                                              TGTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGAC     >  1:1621110/1‑101                                                                                               GTCCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACT    >  2:1043576/1‑101                                                                                                 CCAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTC  <  1:739792/101‑1                                                                                                                                                                                                       CGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1916133‑1916232 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTC  >  REL606/2034326‑2034422

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ 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.