New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1608051 =	14 (0.070)	22 (0.110)	2/186	31.7	0.16	intergenic (+321/‑26)	RCAP_rcc01484/murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
	?	NC_014034	3504133 =	214 (1.010)					intergenic (‑26/+57)	recO/RCAP_rcc03309	DNA repair protein RecO/hypothetical protein
Rejected: Position hash score below cutoff.

TGCCGCCGCCGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGT...................................................................................................  <  NC_014034/1608157‑1608051 ....................................................................................................CGGGGGTTTTGCACCCCCGGGCCCCCGCAGGATATTTGAGGCAAGATAAAAGCGAAAGCCGGGGTCAGTCTTTCAGTCCGTCTTCATCCAGAAGCGTGCGGCCGTG  >  NC_014034/3504133‑3504231                                                                                                                                                                                                                       GCCGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTT                                                                                                    <  1:2271214/101‑1 (MQ=1)        GCCGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTT                                                                                                    <  1:680324/101‑1 (MQ=1)         gCGTGGCCAGCCCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTT                                                                                                   <  2:2076941/100‑1 (MQ=1)         CCGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTT                                                                                                   <  2:1327123/101‑1 (MQ=1)         CCGTGCCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTT                                                                                                   <  2:164894/101‑1 (MQ=1)          CGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTc                                                                                                  <  1:861350/101‑2 (MQ=1)          CGTGACCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTc                                                                                                  <  2:1755565/101‑2 (MQ=1)            TGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTcac                                                                                                >  2:3979325/1‑98 (MQ=1)             GGCCAGACCCGAGCGCCCGAGCCCCAGCACCCCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTcaaa                                                                                               >  1:3779180/1‑97 (MQ=1)                 AGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCC                                                                                           <  2:2093631/101‑1 (MQ=1)                 AGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCC                                                                                           <  2:1841784/101‑1 (MQ=1)                  gcCCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCC                                                                                          <  2:3723554/99‑1 (MQ=1)                  GACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCC                                                                                          <  1:1008254/101‑1 (MQ=1)                   ACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCG                                                                                         <  2:182636/101‑1 (MQ=1)                    CCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGc                                                                                        <  2:2229140/101‑2 (MQ=1)                    CCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGc                                                                                        <  1:1762847/101‑2 (MQ=1)                    CCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGc                                                                                        <  2:4196751/101‑2 (MQ=1)                     CCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGca                                                                                       >  2:2788549/1‑99 (MQ=1)                     CCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGca                                                                                       <  2:3432303/101‑3 (MQ=1)                      CGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGcac                                                                                      >  2:166609/1‑98 (MQ=1)                      CGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGcac                                                                                      <  2:587209/101‑4 (MQ=1)                        AGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGTTTCACACCCCCGcaccc                                                                                    >  2:368002/1‑96 (MQ=1)                                                                                                                                                                                                                TGCCGCCGCCGTGGCCAGACCCGAGCGCCCGAGCCCCAGCACCGCGACGCGCGCACCCTCATATCCCTGAACCGGTATCATCTGCGACCTCCGTAAGCTGCGGGGGT...................................................................................................  <  NC_014034/1608157‑1608051 ....................................................................................................CGGGGGTTTTGCACCCCCGGGCCCCCGCAGGATATTTGAGGCAAGATAAAAGCGAAAGCCGGGGTCAGTCTTTCAGTCCGTCTTCATCCAGAAGCGTGCGGCCGTG  >  NC_014034/3504133‑3504231 Base quality scores:  ATCG  < 3 ≤  ATCG  < 21 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG