New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1103359 =	93 (0.410)	51 (0.230)	9/200	29.4	0.45	intergenic (‑359/+59)	ugpB/regA2	sn‑glycerol‑3‑phosphate‑binding periplasmic protein ugpB/photosynthetic apparatus regulatory protein RegA
	?	NC_014034	= 2330175	30 (0.130)					intergenic (+150/+162)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

TTTTTCTTGGCCCAAATACGCCGGGGGTCCGGGGGCGGAGCCCCC....................................................................................................  <  NC_014034/1103403‑1103359 .............................................CGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGCC  <  NC_014034/2330175‑2330076                                                                                                                                                   TTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTG                                             >  2:3567426/1‑101 (MQ=38)   TTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCG                                           >  1:3363685/1‑101 (MQ=38)    TTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGG                                          >  1:1377464/1‑101 (MQ=37)      CTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCG                                        >  2:3723166/1‑101 (MQ=21)      CTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCG                                        >  1:3367409/1‑101 (MQ=21)        TGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCT                                      >  2:3173422/1‑101 (MQ=17)        TGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCT                                      >  1:2923123/1‑101 (MQ=17)          gcgCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCT                                    >  1:614274/4‑101 (MQ=11)          gcgCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCT                                    >  1:4269809/4‑101 (MQ=11)           cgCAAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTG                                   >  1:4183025/3‑101 (MQ=1)              AAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCTATCCGTGCGGCGCTCTGCGC                                >  1:3645697/1‑101 (MQ=17)              AAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGC                                >  2:2730419/1‑101 (MQ=32)              AAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGC                                >  1:210484/1‑101 (MQ=32)              AAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGC                                >  1:1428380/1‑101 (MQ=32)              AAATACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGC                                >  2:455498/1‑101 (MQ=32)                  ACGCCGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCG                            >  2:3595419/1‑101 (MQ=32)                      CGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGC                        >  2:2590454/1‑101 (MQ=32)                      CGGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGC                        >  2:1389899/1‑101 (MQ=32)                       GGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTagt                       >  1:1568482/1‑98 (MQ=17)                       GGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCC                       >  1:2103477/1‑101 (MQ=32)                       GGGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCC                       >  1:4026583/1‑101 (MQ=32)                        GGGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCG                      >  2:1772347/1‑101 (MQ=32)                         GGGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGC                     >  1:358669/1‑101 (MQ=32)                          GGTGCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCC                    >  2:4376869/1‑101 (MQ=32)                            tgCGGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCT                  >  2:1272127/3‑101 (MQ=32)                               GGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGG               >  2:352069/1‑101 (MQ=32)                               GGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGG               >  2:1339429/1‑101 (MQ=32)                               GGGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGG               >  2:1143206/1‑101 (MQ=32)                               GGGGGCGGAG.CCCCAGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGG               >  2:2661408/1‑101 (MQ=14)                                ggggccggcCCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGG               <  2:2103340/92‑1 (MQ=17)                                GGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGC              >  1:1887689/1‑101 (MQ=32)                                GGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGC              >  2:3294478/1‑101 (MQ=32)                                GGGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGACCTTGGC              >  2:3296802/1‑101 (MQ=17)                                 GGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCTGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCCCCCTTGGCG             >  2:1049312/1‑101 (MQ=12)                                 GGGCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCG             >  2:4090765/1‑101 (MQ=32)                                   GCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGA           >  2:4403295/1‑101 (MQ=11)                                   GCGGAG.CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGA           >  2:3792962/1‑101 (MQ=11)                                     gggcCCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAG          <  1:1961494/97‑1 (MQ=1)                                      ggagCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGG         >  1:73698/5‑101 (MQ=1)                                      ggagCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGG         >  2:3974262/5‑101 (MQ=1)                                      ggagCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGGTGCCGCCCTTGGCGGAGG         >  2:4346917/5‑101 (MQ=1)                                        cCCCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCC       <  2:1786215/100‑1 (MQ=1)                                         CCCCCCGGCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCA      <  2:3824296/101‑1 (MQ=1)                                          CCCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAA     >  2:3436649/1‑101 (MQ=1)                                           CCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAG    >  2:4400030/1‑101 (MQ=1)                                           CCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAG    <  1:3903213/101‑1 (MQ=1)                                           CCCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAG    >  1:2030083/1‑101 (MQ=1)                                            CCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGC   <  1:4394266/101‑1 (MQ=1)                                            CCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGC   >  2:3271453/1‑101 (MQ=1)                                            CCCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGC   >  1:601698/1‑101 (MQ=1)                                             CCGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGCC  >  1:1082643/1‑101 (MQ=1)                                                                                                                                                   TTTTTCTTGGCCCAAATACGCCGGGGGTCCGGGGGCGGAGCCCCC....................................................................................................  <  NC_014034/1103403‑1103359 .............................................CGCCCGGGTCGCCGCGCCTGCGCGGCGAAATTCCTCTCCGCCATCGGCCGATCCGTGCGGCGCTCTGCGCGCCGTTGCCGCCCTTGGCGGAGGCCAAGCC  <  NC_014034/2330175‑2330076 Base quality scores:  ATCG  < 3 ≤  ATCG  < 22 ≤  ATCG  < 30 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG