New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2330179 =	41 (0.190)	25 (0.110)	19/194	22.4	0.16	intergenic (+154/+158)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2555842 =	223 (0.990)					intergenic (‑705/+41)	mraZ/RCAP_rcc02384	protein MraZ/Mrp/NBP35 family protein
Rejected: Position hash score below cutoff.

ATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG...................................................................................................  <  NC_014034/2330279‑2330179 ..................................................................................................GGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCCCGGCCGCG  >  NC_014034/2555842‑2555940                                                                                                                                                                                                            CTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGC                                                                                                   <  2:1435079/101‑1 (MQ=1)     TTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGG                                                                                                 <  2:1217827/101‑1 (MQ=1)      TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                <  1:1478313/101‑1 (MQ=1)      TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                >  2:3411448/1‑101 (MQ=1)      TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                <  1:2244058/101‑1 (MQ=1)      TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                <  1:2376141/101‑1 (MQ=1)       GGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG                                                                                               >  1:3304813/1‑101 (MQ=1)        GCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                              <  1:3462125/101‑1 (MQ=1)          CCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCC                                                                                            >  2:3067909/1‑101 (MQ=1)            CAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCC                                                                                          <  2:4153253/101‑1 (MQ=1)            CAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCC                                                                                          >  2:3182078/1‑101 (MQ=1)             AGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCG                                                                                         >  1:3713511/1‑101 (MQ=1)              GGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGC                                                                                        >  1:528245/1‑101 (MQ=1)                 GAAAGCCGCCCGGTCCGCCGGTGATCCGGGGCCCTGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCG                                                                                     <  1:3828947/101‑1 (MQ=12)                    AGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGT                                                                                  >  1:1786334/1‑101 (MQ=32)                        GCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCC                                                                              >  2:4393994/1‑101 (MQ=32)                        GCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCC                                                                              >  2:3926941/1‑101 (MQ=32)                          CCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGC                                                                            <  2:712034/101‑1 (MQ=32)                            GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                          >  2:415125/1‑101 (MQ=32)                            GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGCGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                          >  1:3824549/1‑101 (MQ=17)                            GGGCCGCCGGTGAGCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                          <  2:1485714/101‑1 (MQ=17)                            GGGCCGCCAGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                          <  2:2609953/101‑1 (MQ=17)                                CGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCtgc                                                                      >  2:2858685/1‑98 (MQ=1)                                 GCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCtgcg                                                                     <  2:3998015/101‑5 (MQ=11)                                   CGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCtgcgcg                                                                   >  2:1168758/1‑95 (MQ=17)                                      TGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCG                                                               >  2:928724/1‑101 (MQ=21)                                       GATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGA                                                              >  2:2522010/1‑101 (MQ=21)                                          CCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAAT                                                           >  1:1619891/1‑101 (MQ=21)                                            GGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtc                                                         >  2:1961365/1‑99 (MQ=37)                                            GGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtc                                                         <  2:1288734/101‑3 (MQ=38)                                                                                             gacGCGGGGGCGCAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCCC         <  2:1603506/98‑1 (MQ=0)                                                                                                                                                                                                          ATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG...................................................................................................  <  NC_014034/2330279‑2330179 ..................................................................................................GGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCCCGGCCGCG  >  NC_014034/2555842‑2555940 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG