New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	925895 =	266 (1.110)	61 (0.250)	24/196	16.1	0.28	intergenic (+148/+26)	RCAP_rcc00838/glcB	DnaJ domain‑containing protein/malate synthase
	?	NC_014034	1255906 =	42 (0.170)					intergenic (+76/+166)	RCAP_rcc01184/RCAP_rcc01185	CsbD family protein/methyl‑accepting chemotaxis sensory transducer
Rejected: Position hash score below cutoff.

GGATCCAGTCCTCGGGCTATACCGAGCCGGTGCTGCACCAGCGCCGGGCGCAGGTGAAGGCCGCCAAAGCATAAGAAA.GGGGGGGCGCTGCCCCCCGTCC....................................................................................................  <  NC_014034/925994‑925895 ....................................................................................................CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTTCCCGA  >  NC_014034/1255906‑1256005                                                                                                                                                                                                                 AGTCCTCGGGCTATACCGAGCCGGTGCTGCACCAGCGCCGGGCGCAGGTGAAGGCCGCCAAAGCATAAGAAAGGGGGGGGCGCTGCCCCCCGTCCCCaagg                                                                                                >  2:1510794/1‑97 (MQ=255)                                                                        ccgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAA                             <  2:1860024/95‑1 (MQ=0)                                                                        ccgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAA                             <  2:2376940/95‑1 (MQ=0)                                                                         cgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAA                            <  2:380016/96‑1 (MQ=0)                                                                         cgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAA                            <  1:4952804/96‑1 (MQ=0)                                                                         cgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAA                            <  1:627349/96‑1 (MQ=0)                                                                         cgaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAA                            <  2:1119881/96‑1 (MQ=0)                                                                          gaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                           <  1:4767140/97‑1 (MQ=0)                                                                          gaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                           <  2:2487914/97‑1 (MQ=0)                                                                          gaagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                           >  2:3338605/5‑101 (MQ=0)                                                                          cgaaggGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAA                            <  1:1732951/95‑1 (MQ=0)                                                                           aagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATA                          <  1:4303113/98‑1 (MQ=0)                                                                           aagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATA                          <  2:3557168/98‑1 (MQ=0)                                                                           aagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATA                          <  1:2122174/98‑1 (MQ=0)                                                                           aagA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATA                          <  1:4081421/98‑1 (MQ=0)                                                                            agA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                         <  2:2965004/99‑1 (MQ=0)                                                                            agA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                         <  1:5046354/99‑1 (MQ=0)                                                                            agA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                         <  1:3002992/99‑1 (MQ=0)                                                                            agA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                         >  2:2228324/3‑101 (MQ=0)                                                                            agA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                         >  2:672910/3‑101 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        <  2:1171050/100‑1 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        >  2:2167930/2‑101 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        <  1:492849/100‑1 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        <  2:3204991/100‑1 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        <  1:4136885/100‑1 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        >  1:3474237/2‑101 (MQ=0)                                                                             gA.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                        <  1:3338868/100‑1 (MQ=0)                                                                              A.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCC                       >  1:145584/1‑101 (MQ=1)                                                                              A.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCC                       >  1:4107497/1‑101 (MQ=1)                                                                              A.GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCC                       <  1:2142267/101‑1 (MQ=1)                                                                                GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC                      <  2:1182166/101‑1 (MQ=1)                                                                                GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC                      <  1:2173829/101‑1 (MQ=1)                                                                                 GGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCG                     <  1:4015797/101‑1 (MQ=1)                                                                                 GGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCG                     >  1:3309940/1‑101 (MQ=1)                                                                                 GGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCG                     >  2:2832019/1‑101 (MQ=1)                                                                                  GGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGG                    >  1:2530452/1‑101 (MQ=1)                                                                                   GGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGG                   <  2:2864845/101‑1 (MQ=1)                                                                                    GGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGG                  <  2:4675800/101‑1 (MQ=1)                                                                                      GCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGG                <  1:2083646/101‑1 (MQ=1)                                                                                      GCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGG                <  2:3466873/101‑1 (MQ=1)                                                                                        GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGG              <  2:1764198/101‑1 (MQ=1)                                                                                        GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGG              >  1:4844195/1‑101 (MQ=1)                                                                                         CTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGG             >  2:183270/1‑101 (MQ=1)                                                                                          ccCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCCGGGGGGGGGG            <  2:4295401/99‑1 (MQ=0)                                                                                          TGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGG            <  1:3275112/101‑1 (MQ=1)                                                                                           GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCCGGGGGGGGGGA           <  2:829012/101‑1 (MQ=0)                                                                                           GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGg           >  2:4410361/1‑100 (MQ=0)                                                                                           GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA           <  2:2940760/101‑1 (MQ=1)                                                                                           GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA           <  1:4634084/101‑1 (MQ=1)                                                                                           GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA           >  1:1667949/1‑101 (MQ=1)                                                                                            CCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAA          >  2:3338797/1‑101 (MQ=1)                                                                                            CCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAA          <  1:732774/101‑1 (MQ=1)                                                                                             CCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGCAC         >  2:3002205/1‑101 (MQ=0)                                                                                              CCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCCGGGGGGGGGGAACT        <  1:4927706/101‑1 (MQ=0)                                                                                               ccccgCCCCTGCGGGCCTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACT        <  2:3501353/96‑1 (MQ=0)                                                                                               CCCGT.CCCTGCGGGCCTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTT       <  1:5003270/101‑1 (MQ=0)                                                                                               CCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCTCCTTGGGCCAAATATCCCGGGGGGGGGGAACTc       >  2:759744/1‑100 (MQ=0)                                                                                               CCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTT       >  1:2720279/1‑101 (MQ=1)                                                                                               CCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTT       >  1:2402168/1‑101 (MQ=1)                                                                                                                                                                                                           GGATCCAGTCCTCGGGCTATACCGAGCCGGTGCTGCACCAGCGCCGGGCGCAGGTGAAGGCCGCCAAAGCATAAGAAA.GGGGGGGCGCTGCCCCCCGTCC....................................................................................................  <  NC_014034/925994‑925895 ....................................................................................................CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTTCCCGA  >  NC_014034/1255906‑1256005 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG