New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 530939	118 (0.570)	67 (0.320)	34/184	14.7	0.30	intergenic (+17/+124)	valS/RCAP_rcc00497	valyl‑tRNA synthetase/UbiA prenyltransferase
	?	NC_014034	3609079 =	198 (0.880)					intergenic (+18/‑153)	clpB/dinB	chaperone ClpB/DNA polymerase IV
Rejected: Position hash score below cutoff.

GATCGAGGAAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTC....................................  >  NC_014034/530832‑530939 ....................................................................................................GGGGGCTCTG.CCCCCGCTTCGCTCCCCCCGGGATATTTGGGCA  >  NC_014034/3609079‑3609113                                                                                                                                                          AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAGGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                     <  1:2806143/101‑1 (MQ=255)         AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGGTCT                                     >  1:2049516/1‑101 (MQ=255)         AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                     <  1:3688569/101‑1 (MQ=255)         AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                     <  2:3706338/101‑1 (MQ=255)         AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                     <  2:408640/101‑1 (MQ=255)         AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                     <  1:4372998/101‑1 (MQ=255)          AGCGCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG                                    <  2:4072248/101‑1 (MQ=255)          AGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG                                    >  2:3037253/1‑101 (MQ=255)           GCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.C                                  <  1:4218668/101‑1 (MQ=255)           GCCCGCGAAAACCGCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.C                                  <  2:2550761/101‑1 (MQ=255)            gCCGCGAAACCCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.Cg                                 <  1:3533269/100‑2 (MQ=255)            CCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CC                                 <  2:2580380/101‑1 (MQ=255)            CCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CC                                 <  2:3172902/101‑1 (MQ=255)             CCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCC                                <  1:1192890/101‑1 (MQ=255)             CCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCC                                >  2:302977/1‑101 (MQ=255)             CCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCC                                <  2:3342159/101‑1 (MQ=255)                CGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCc                             <  2:3677541/101‑2 (MQ=255)                 GAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcg                            <  1:3106463/101‑3 (MQ=255)                 GAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcc                            >  2:3924159/1‑99 (MQ=255)                  AAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgc                           >  1:704729/1‑98 (MQ=255)                  AAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgc                           >  2:1752751/1‑98 (MQ=255)                   AAACCTCGCCGCGCGCGGGGAAGAGGCGGGGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgct                          <  1:3719809/101‑5 (MQ=255)                   AAACCTCGCCGCGCGCGGGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgct                          <  1:916736/101‑5 (MQ=255)                   AAACCGCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgct                          <  2:400171/101‑5 (MQ=255)                    agCCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCCGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgctt                         <  2:4396514/99‑6 (MQ=255)                    AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgctt                         >  1:2616030/1‑96 (MQ=255)                    AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG.CCCCCcgctt                         <  1:1116960/101‑6 (MQ=255)                     ACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTC                         >  1:3991966/1‑101 (MQ=255)                     ACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTC                         <  1:1786435/101‑1 (MQ=255)                     ACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTC                         <  1:803235/101‑1 (MQ=255)                      CCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGGTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCG                        <  2:3694468/101‑1 (MQ=255)                      CCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCG                        <  2:2756505/101‑1 (MQ=255)                       CTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGC                       >  2:2404180/1‑101 (MQ=255)                        cCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCT                      <  1:1248954/100‑1 (MQ=255)                        TCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCT                      <  2:2931856/101‑1 (MQ=255)                        TCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCT                      <  2:1685064/101‑1 (MQ=255)                         CGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTC                     >  2:3172242/1‑101 (MQ=255)                          GCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCC                    <  2:2058176/101‑1 (MQ=255)                           CCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCC                   <  2:4418774/101‑1 (MQ=255)                            CGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCC                  <  2:2487577/101‑1 (MQ=255)                              CGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCC                <  2:3726733/101‑1 (MQ=255)                               GCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCG               <  2:3878657/101‑1 (MQ=255)                               GCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCG               <  2:295912/101‑1 (MQ=255)                                CGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGG              <  1:1639671/101‑1 (MQ=255)                                CGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGG              >  1:3929503/1‑101 (MQ=255)                                CGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGG              <  1:3597110/101‑1 (MQ=255)                                  CGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGA            >  1:205280/1‑101 (MQ=255)                                  CGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGA            >  1:2955935/1‑101 (MQ=255)                                  CGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGCATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGA            >  1:345410/1‑101 (MQ=255)                                   GCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGAT           <  1:3528229/101‑1 (MQ=255)                                   GCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGAT           <  1:2952649/101‑1 (MQ=255)                                    CGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATA          >  2:4185865/1‑101 (MQ=255)                                    CGGAAGAGGCGGCGAAGAGCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATA          <  2:222981/101‑1 (MQ=255)                                     GGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATAT         >  2:3987740/1‑101 (MQ=255)                                     GGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATAT         >  2:2485241/1‑101 (MQ=255)                                      GAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATT        <  1:2756868/101‑1 (MQ=255)                                       AAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTT       <  2:945398/101‑1 (MQ=255)                                       AAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTT       >  2:135218/1‑101 (MQ=255)                                        AGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTt      <  1:1435727/101‑2 (MQ=255)                                        AGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTt      >  2:195495/1‑100 (MQ=255)                                         GAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtc     <  2:1481171/101‑3 (MQ=255)                                         GAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtc     <  2:725383/101‑3 (MQ=255)                                          AGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtcg    >  1:425503/1‑98 (MQ=255)                                          AGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtcg    >  1:611465/1‑98 (MQ=255)                                          AGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtcg    <  2:236250/101‑4 (MQ=255)                                            GCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtcggc  <  1:3412256/101‑6 (MQ=255)                                            GCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGCTTCGCTCCCCCCGGGATATTTtcggc  <  1:1538145/101‑6 (MQ=255)                                                                                                                                                  GATCGAGGAAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTC....................................  >  NC_014034/530832‑530939 ....................................................................................................GGGGGCTCTG.CCCCCGCTTCGCTCCCCCCGGGATATTTGGGCA  >  NC_014034/3609079‑3609113 Base quality scores:  ATCG  < 3 ≤  ATCG  < 17 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG