New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2995498 =	69 (0.350)	35 (0.180)	16/188	20.9	0.39	intergenic (+38/+182)	RCAP_rcc02802/RCAP_rcc02803	membrane dipeptidase/hypothetical protein
	?	NC_014034	= 3701428	42 (0.200)					intergenic (+5/+44)	grpE/mutS	GrpE protein/DNA mismatch repair protein MutS
Rejected: Position hash score below cutoff.

AGGAAAAGCAGGGCGCTGGGCCGCCGACGGGTTGCGGGGCGGCAACCGAAGGGGTTTTCCTTGGCAAAATACGCCTCTTGGGGGTCCGGGGGCGAAGCCCCCGGC....................................................................................................  <  NC_014034/2995602‑2995498 ...................................................................................................CCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAATGATGTCAC  <  NC_014034/3701428‑3701329                                                                                                                                                                                                                                                                                     aaatatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGC                                    >  1:1911397/9‑101 (MQ=35)                                                                       aaatatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGC                                    >  1:2867942/9‑101 (MQ=35)                                                                       aaatatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGC                                    >  2:2929956/9‑101 (MQ=35)                                                                        aatatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCA                                   >  1:3143322/8‑101 (MQ=35)                                                                        aatatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCA                                   >  1:3226108/8‑101 (MQ=35)                                                                          tatccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGG                                 >  1:434579/6‑101 (MQ=34)                                                                           atccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGA                                >  1:2717069/5‑101 (MQ=33)                                                                           atccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGA                                >  2:3556274/5‑101 (MQ=33)                                                                           atccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGA                                >  1:3448503/5‑101 (MQ=33)                                                                            tccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAA                               >  1:1548015/4‑101 (MQ=32)                                                                             ccTGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAG                              >  2:3050833/3‑101 (MQ=31)                                                                               TGGGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGCCGGTCGTGCAGCAGGAAGCC                            >  1:91862/1‑101 (MQ=1)                                                                                 GGGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGT                          >  1:2141691/1‑101 (MQ=1)                                                                                  GGGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTC                         >  2:2405829/1‑101 (MQ=1)                                                                                   GGTCCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCG                        >  1:3542474/1‑101 (MQ=1)                                                                                      CCGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCC                     >  2:968903/1‑101 (MQ=1)                                                                                       CGGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCA                    >  2:2464848/1‑101 (MQ=1)                                                                                        GGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCAT                   >  2:2501952/1‑101 (MQ=1)                                                                                        GGGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCAT                   >  2:418347/1‑101 (MQ=1)                                                                                         GGGGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATC                  >  2:959142/1‑101 (MQ=1)                                                                                           GGCGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCAC                >  1:3066262/1‑101 (MQ=1)                                                                                             CGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCT              >  2:232205/1‑101 (MQ=1)                                                                                             CGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCT              >  2:2327365/1‑101 (MQ=1)                                                                                             CGAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCT              >  2:2358971/1‑101 (MQ=1)                                                                                              GAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTG             >  2:1841542/1‑101 (MQ=1)                                                                                              GAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTG             >  2:2773174/1‑101 (MQ=1)                                                                                              GAAGCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTG             >  1:312518/1‑101 (MQ=1)                                                                                               cccCCCCCCCCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGA            <  2:2237235/98‑1 (MQ=0)                                                                                               cccCCCCCCCCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGA            <  2:2300746/98‑1 (MQ=0)                                                                                               cccCCCCCCCCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGA            <  1:3581228/98‑1 (MQ=0)                                                                                                 cCCCCCGCCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAAT          <  1:2819396/100‑1 (MQ=1)                                                                                                 GCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAAT          >  2:499485/1‑101 (MQ=1)                                                                                                 GCCCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGCAAGACGTCGTCCATCACTTGAAT          >  2:1282283/1‑101 (MQ=0)                                                                                                  CCCCCCCCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAATG         <  2:2964161/101‑1 (MQ=0)                                                                                                   CCCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAATGA        >  1:2155682/1‑101 (MQ=1)                                                                                                                                                                                                               AGGAAAAGCAGGGCGCTGGGCCGCCGACGGGTTGCGGGGCGGCAACCGAAGGGGTTTTCCTTGGCAAAATACGCCTCTTGGGGGTCCGGGGGCGAAGCCCCCGGC....................................................................................................  <  NC_014034/2995602‑2995498 ...................................................................................................CCCGGCCTGCCTCAGGCTTTCGGCATCGAACTCACGCCGACTTTCGCCGGACGCAGCAGACGGTCGTGCAGCAGGAAGCCGTCGTCCATCACCTGAATGATGTCAC  <  NC_014034/3701428‑3701329 Base quality scores:  ATCG  < 3 ≤  ATCG  < 24 ≤  ATCG  < 30 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG