New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 744683	44 (0.240)	34 (0.180)	24/174	15.7	0.48	intergenic (+68/+144)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	= 2330277	31 (0.150)					intergenic (+252/+60)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

ATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGAT...................................................................................................  >  NC_014034/744571‑744683 ....................................................................................................GGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG  <  NC_014034/2330277‑2330179                                                                                                                                                                                                                                                                                       gcccgccCGGGCCACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCAT                                                <  1:358864/94‑1 (MQ=2)                                                                    gccgcCGGCCGCCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGC                                              <  2:3246300/96‑1 (MQ=255)                                                                     ggccgcGGCGCCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCG                                             <  2:257504/95‑1 (MQ=2)                                                                     GCCTC.GGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGC                                            >  2:2760031/1‑101 (MQ=11)                                                                        ctcGGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGC                                          >  2:1812091/4‑101 (MQ=11)                                                                           gccccCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCC                                       <  1:1385747/96‑1 (MQ=1)                                                                           GGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCC                                       <  1:2556730/101‑1 (MQ=1)                                                                            gcccCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCG                                      <  2:102775/97‑1 (MQ=1)                                                                             gcACCCGCCGGGGGCTCCGACCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGG                                     <  1:400121/99‑1 (MQ=1)                                                                             CGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGG                                     >  1:1947808/1‑101 (MQ=1)                                                                               cCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCT                                   <  2:3753598/100‑1 (MQ=1)                                                                                CCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCTCGCCCCGGCTT                                  <  1:2856346/101‑1 (MQ=1)                                                                                  CGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTT                                <  1:2362203/101‑1 (MQ=1)                                                                                     CGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCT                             >  2:283358/1‑101 (MQ=1)                                                                                     CGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGACGCCCGGGCCGCCGGTGATCCGGGGCCCCGCACGCGCGCCCCGGCGTTTTCT                             >  1:1102860/1‑101 (MQ=0)                                                                                     CGGGGCCTTCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCCCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCT                             <  1:4008319/101‑1 (MQ=0)                                                                                      GGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTT                            <  1:815853/101‑1 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                           <  2:957855/101‑1 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                           >  1:75361/1‑101 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                           <  1:1322437/101‑1 (MQ=1)                                                                                         GGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGC                         >  2:122333/1‑101 (MQ=1)                                                                                         GGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGC                         >  1:2551832/1‑101 (MQ=1)                                                                                            TCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCA                      >  2:2991344/1‑101 (MQ=1)                                                                                              CGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAA                    <  1:374631/101‑1 (MQ=1)                                                                                                CCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATA                  >  1:714198/1‑101 (MQ=1)                                                                                                CCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATA                  <  1:1901/101‑1 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC                 <  2:2263649/101‑1 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC                 >  1:3052015/1‑101 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC                 <  2:496104/101‑1 (MQ=1)                                                                                                  CCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACG                <  2:75346/101‑1 (MQ=1)                                                                                                   CCGGGCCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC               <  1:859780/101‑1 (MQ=1)                                                                                                   CCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC               >  2:2412673/1‑101 (MQ=1)                                                                                                   CCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC               >  1:1644508/1‑101 (MQ=1)                                                                                                    CGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCC              >  1:3684590/1‑101 (MQ=1)                                                                                                                                                                                                                      ATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGAT...................................................................................................  >  NC_014034/744571‑744683 ....................................................................................................GGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG  <  NC_014034/2330277‑2330179 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG