New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1253895 =	34 (0.140)	54 (0.220)	12/196	21.7	0.41	intergenic (+53/+38)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 3276387	124 (0.510)					intergenic (‑139/+110)	RCAP_rcc03082/RCAP_rcc03083	lipoprotein/membrane bound YbgT‑like protein
Rejected: Position hash score below cutoff.

CCGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1253995‑1253895 ...................................................................................................CGGGGGCTCCGCCCCCGGACCCCCGGCGTATTTGGGCCAAGAAGAAACGGGGGCCGGTTGCCCGGGGGGCCTTGCGCCGCATTGCCCCTTGCCCCCGTCGTG  <  NC_014034/3276387‑3276288                                                                                                                                                                                                             GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGG                                                                                                    >  2:2567642/1‑101 (MQ=1)   GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGG                                                                                                    >  2:2239745/1‑101 (MQ=1)    GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCCGGG                                                                                                   >  1:62400/1‑101 (MQ=1)     AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGCGG                                                                                                  >  1:2071836/1‑101 (MQ=11)      GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGC                                                                                                 <  1:260268/101‑1 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGCGGGgg                                                                                                >  2:1804185/1‑99 (MQ=14)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGTGCT                                                                                                <  2:2105458/101‑1 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgg                                                                                                >  1:4834091/1‑99 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgg                                                                                                >  2:4863526/1‑99 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgc                                                                                                >  1:3634218/1‑99 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCT                                                                                                <  2:188010/101‑1 (MQ=1)       AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCT                                                                                                <  1:1373676/101‑1 (MQ=1)        AATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTC                                                                                               <  1:2593273/101‑1 (MQ=1)         ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgggg                                                                                              >  2:1251963/1‑97 (MQ=1)         ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCC                                                                                              <  1:385677/101‑1 (MQ=1)         ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGCGGGgccc                                                                                              >  2:3701300/1‑97 (MQ=11)          TCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCG                                                                                             <  2:4934030/101‑1 (MQ=1)             CAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGggggcgcg                                                                                          >  1:3585577/1‑93 (MQ=0)              AGCGCACCGGGCTGCGGATCAGCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCt                                                                                         <  1:50977/101‑2 (MQ=1)               GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGGCGCGCCCCC                                                                                        >  1:780364/1‑101 (MQ=0)               GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  2:4519202/101‑1 (MQ=1)               GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  2:1768042/101‑1 (MQ=1)               GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  2:1808640/101‑1 (MQ=1)               GCGCACCGGGCTGCGGATCATCTCGAATTTCCGGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  1:83481/101‑1 (MQ=1)                 GCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGGGGGGCCGCCCCCcc                                                                                      >  1:3386172/1‑99 (MQ=2)                 GCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGGTCCGCCCCCcc                                                                                      >  2:3190353/1‑99 (MQ=1)                 GCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGAAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGc                                                                                      <  2:2897215/101‑2 (MQ=11)                  CACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGca                                                                                     <  2:2696591/101‑3 (MQ=31)                   ACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCAC                                                                                    <  1:2638850/101‑1 (MQ=32)                    CCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACC                                                                                   <  1:3069058/101‑1 (MQ=32)                    CCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACC                                                                                   <  1:4507298/101‑1 (MQ=32)                     CGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCC                                                                                  <  2:312837/101‑1 (MQ=32)                      GGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCC                                                                                 <  2:2688040/101‑1 (MQ=32)                      GGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCC                                                                                 <  2:4918021/101‑1 (MQ=32)                       GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCC                                                                                <  1:1693991/101‑1 (MQ=32)                       GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCC                                                                                <  1:385865/101‑1 (MQ=32)                        GCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCG                                                                               <  1:280850/101‑1 (MQ=32)                        GCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCG                                                                               <  1:1864881/101‑1 (MQ=32)                          tgcgtcTCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGag                                                                             <  2:2408468/95‑3 (MQ=16)                          TGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCG.CCCCGCACCCCCGagg                                                                            <  2:4168538/101‑4 (MQ=1)                            CGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGTGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggt                                                                           <  1:1880712/101‑5 (MQ=17)                            CGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggt                                                                           <  1:4203828/101‑5 (MQ=32)                             GGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggta                                                                          <  2:3025740/101‑6 (MQ=32)                              GATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTAT                                                                         <  1:4146736/101‑1 (MQ=32)                               ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  1:4018971/101‑1 (MQ=32)                               ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  2:193610/101‑1 (MQ=32)                               ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  2:3727976/101‑1 (MQ=32)                               ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  1:4125409/101‑1 (MQ=32)                               ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  2:2446408/101‑1 (MQ=32)                                TCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTT                                                                       <  2:1334809/101‑1 (MQ=32)                                 CATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTa                                                                      <  2:1954379/101‑2 (MQ=32)                                 CATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTa                                                                      <  2:4461898/101‑2 (MQ=32)                                  ATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTag                                                                     <  2:1969962/101‑3 (MQ=32)                                  ATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTag                                                                     <  2:2071688/101‑3 (MQ=32)                                                                                                                                                                                                           CCGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1253995‑1253895 ...................................................................................................CGGGGGCTCCGCCCCCGGACCCCCGGCGTATTTGGGCCAAGAAGAAACGGGGGCCGGTTGCCCGGGGGGCCTTGCGCCGCATTGCCCCTTGCCCCCGTCGTG  <  NC_014034/3276387‑3276288 Base quality scores:  ATCG  < 3 ≤  ATCG  < 17 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG