New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1255905 =	56 (0.240)	46 (0.200)	17/196	25.8	0.27	intergenic (+75/+167)	RCAP_rcc01184/RCAP_rcc01185	CsbD family protein/methyl‑accepting chemotaxis sensory transducer
	?	NC_014034	2640254 =	196 (0.830)					intergenic (‑230/+46)	thrS/RCAP_rcc02462	threonyl‑tRNA synthetase/hypothetical protein
Rejected: Position hash score below cutoff.

TTCGGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGG.....................................................................................................  <  NC_014034/1256006‑1255905 ....................................................................................................GGACGGGGGGCAGAG.CCCCCCTCCCGGGTCTTTCTCAAGCGTTCCGGCTCAGAACCGGAAGCCCGCGCGCACCTGCACGGTGTTGAAGTTGGTGTCGACGCT  >  NC_014034/2640254‑2640353                                                                                                                                                                                                               CGGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCTCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGA                                                                                                      >  1:589529/1‑101 (MQ=11)   CGGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGA                                                                                                      <  2:4558217/101‑1 (MQ=11)    GGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAGGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGAC                                                                                                     <  2:1784993/101‑1 (MQ=14)    GGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGACCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGAC                                                                                                     <  2:367869/101‑1 (MQ=14)        AGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGG                                                                                                 <  2:2181087/101‑1 (MQ=34)          TTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCCGGGGCGGGGGG                                                                                               >  2:1944670/1‑101 (MQ=9)          TTCCCCCCCCCCGGGATATTTGGCCCAAGGGGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGG                                                                                               >  2:3512211/1‑101 (MQ=21)           gCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGC                                                                                              <  1:3687060/100‑1 (MQ=21)           TCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGC                                                                                              <  2:2375928/101‑1 (MQ=34)           TCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGC                                                                                              <  1:2204268/101‑1 (MQ=34)           TCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGC                                                                                              <  2:4098838/101‑1 (MQ=34)           TCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGC                                                                                              <  2:1415529/101‑1 (MQ=34)            CCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCA                                                                                             <  1:2340404/101‑1 (MQ=34)            CCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCA                                                                                             <  1:2452341/101‑1 (MQ=34)            CCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCA                                                                                             <  1:27884/101‑1 (MQ=34)             CCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTCGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAG                                                                                            >  1:264472/1‑101 (MQ=21)              CCCCCCCCGGGCTATTTGGCCCAAGGTGAAAGCCGCGCCCGGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGc                                                                                           <  2:1059687/101‑2 (MQ=16)              CCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGc                                                                                           <  1:2632666/101‑2 (MQ=18)              CCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGc                                                                                           >  2:2106360/1‑100 (MQ=18)              CCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGc                                                                                           <  2:4238676/101‑2 (MQ=18)               CCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGcg                                                                                          <  2:1459732/101‑3 (MQ=17)                 CCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGGAGCG.CC                                                                                       >  1:3257655/1‑101 (MQ=9)                 CCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CC                                                                                       >  1:3627352/1‑101 (MQ=14)                  CCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCC                                                                                      >  2:3372997/1‑101 (MQ=14)                    CCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCC                                                                                    <  2:109748/101‑1 (MQ=14)                    CCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCC                                                                                    <  2:4356980/101‑1 (MQ=14)                    CCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGACGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCC                                                                                    <  2:1542610/101‑1 (MQ=9)                     CGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCC                                                                                   >  1:3508824/1‑101 (MQ=14)                      GGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCc                                                                                  >  2:3086253/1‑100 (MQ=11)                       GGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCct                                                                                 <  1:2069046/101‑3 (MQ=1)                       GGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTGCCCCTTGGCGGAAATATCCTGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCct                                                                                 <  2:4652942/101‑3 (MQ=0)                        GATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCCCC                                                                                >  2:2358331/1‑101 (MQ=2)                         ATATTTGGCCCAAGGTGAAAGCCGCGCCCGGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctct                                                                               <  2:1750264/101‑5 (MQ=0)                         ATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCGACCCCCCTCt                                                                                >  2:894607/1‑100 (MQ=0)                         ATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctct                                                                               <  2:3276209/101‑5 (MQ=0)                          TATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctctt                                                                              <  2:3736369/101‑6 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             <  2:300309/101‑7 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             >  2:2419576/1‑95 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             <  2:4353141/101‑7 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             <  1:4952/101‑7 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             <  1:4389355/101‑7 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             >  1:409687/1‑95 (MQ=0)                           ATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttc                                                                             <  1:1493754/101‑7 (MQ=0)                             TTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttcgg                                                                           >  2:260470/1‑93 (MQ=0)                             TTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGGACGGGGGGCAGCG.CCCCCCctcttcgg                                                                           >  2:1188185/1‑93 (MQ=0)                                                                                                  aAGGGAGGGGGGGCAGAT.CCCCCCTCCCGGGTCTTTCTCAAGCGTTCCGGCTCAGAACCGGAAGCCCGCGCGCACCTGCACGGTGTTGAAGTTGGTGTCGA      <  2:2864410/100‑1 (MQ=12)                                                                                                                                                                                                             TTCGGGAAGTTCCCCCCCCCCGGGATATTTGGCCCAAGGTGAAAGCCGCGCCCCGGGTTCATTTCCCCTTGGCGGAAATATCCCGGGGGGAGTCCCGCAGGG.....................................................................................................  <  NC_014034/1256006‑1255905 ....................................................................................................GGACGGGGGGCAGAG.CCCCCCTCCCGGGTCTTTCTCAAGCGTTCCGGCTCAGAACCGGAAGCCCGCGCGCACCTGCACGGTGTTGAAGTTGGTGTCGACGCT  >  NC_014034/2640254‑2640353 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG