New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2600949	0 (0.000)	46 (0.220)	13/188	25.4	0.38	intergenic (+11/‑130)	RCAP_rcc02424/surE	short‑chain dehydrogenase/reductase family oxidoreductase/5'‑nucleotidase SurE
	?	NC_014034	= 2640266	149 (0.660)					intergenic (‑242/+34)	thrS/RCAP_rcc02462	threonyl‑tRNA synthetase/hypothetical protein
Rejected: Position hash score below cutoff.

CCACCGCCGTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGG.....................................................................................................  >  NC_014034/2600844‑2600949 ....................................................................................................GGGGGGCTCTGCCCCCCGTCCTTTCAGGACTCCCCCCGGGATATTTGAGGCAAGATGAACCCATGGTCTTTTCATCTTGTTCCAAATACCTCGGGGGGCGAATTGGC  <  NC_014034/2640266‑2640166                                                                                                                                                                                                                       CCGTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGC                                                                                                      <  1:203381/101‑1 (MQ=1)        CGTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCT                                                                                                     <  1:3380892/101‑1 (MQ=1)        CGTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCT                                                                                                     <  2:2250945/101‑1 (MQ=1)         GTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGGGATCTGACGGACGGGGGGCTC                                                                                                    >  1:570262/1‑101 (MQ=1)         GTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTC                                                                                                    >  2:4286471/1‑101 (MQ=1)         GTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTC                                                                                                    >  1:2478824/1‑101 (MQ=1)         GTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTC                                                                                                    <  1:1921924/101‑1 (MQ=1)          TGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCT                                                                                                   >  2:4003418/1‑101 (MQ=1)          TGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCT                                                                                                   <  2:397666/101‑1 (MQ=1)            CGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACCGGGGGCgggcc                                                                                                 >  2:876355/1‑96 (MQ=0)              GGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCC                                                                                               >  1:2437751/1‑101 (MQ=1)               GCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCC                                                                                              <  1:3139658/101‑1 (MQ=1)                CGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCC                                                                                             >  2:2793324/1‑101 (MQ=1)                CGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCC                                                                                             <  1:1298877/101‑1 (MQ=1)                CGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCC                                                                                             >  2:2177369/1‑101 (MQ=1)                 GCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCC                                                                                            <  2:1221863/101‑1 (MQ=1)                 GCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCC                                                                                            <  1:3456140/101‑1 (MQ=1)                  nGCNTNNTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCn                                                                                           <  1:1831462/100‑2 (MQ=1)                  CGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGGGCTGCCCCCCc                                                                                           >  1:1551736/1‑100 (MQ=1)                  CGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCG                                                                                           <  2:1963757/101‑1 (MQ=1)                  CGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCG                                                                                           >  2:1277049/1‑101 (MQ=1)                  CGCTCCTTCCCGTCCGAGGGCCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCG                                                                                           <  1:1249898/101‑1 (MQ=0)                   GCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGg                                                                                          >  1:981544/1‑100 (MQ=1)                    CTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgc                                                                                         >  2:1154956/1‑99 (MQ=1)                    CTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgc                                                                                         <  1:3452705/101‑3 (MQ=1)                     TTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGGTCTGCCCCCCGgct                                                                                        >  2:2587881/1‑98 (MQ=1)                     TTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgct                                                                                        >  2:1042565/1‑98 (MQ=1)                     TTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgct                                                                                        <  1:2653115/101‑4 (MQ=1)                     TTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgct                                                                                        <  2:1781560/101‑4 (MQ=1)                     TTCTTCCCGTCCGAGGACCGCACGCCGCTGAACGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCAAGATCTGACGGACGGGGGGCTCTGCCCCCCGgct                                                                                        <  1:3673748/101‑4 (MQ=0)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       >  1:3352598/1‑97 (MQ=1)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       >  1:2768641/1‑97 (MQ=1)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       <  1:2736017/101‑5 (MQ=1)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       <  1:2339738/101‑5 (MQ=1)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       >  1:1545095/1‑97 (MQ=1)                      TCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgctt                                                                                       <  2:3737302/101‑5 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  1:1007707/101‑6 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  2:482636/101‑6 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  2:106601/101‑6 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  1:1632469/101‑6 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  2:3846544/101‑6 (MQ=1)                       CTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttc                                                                                      <  1:1865277/101‑6 (MQ=1)                        TTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttcg                                                                                     >  2:2962821/1‑95 (MQ=1)                        TTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttcg                                                                                     <  2:1439911/101‑7 (MQ=1)                         TCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttcgc                                                                                    >  2:1821377/1‑94 (MQ=1)                          CCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGGCTCTGCCCCCCGgcttccgc                                                                                   >  2:3376378/1‑93 (MQ=1)                                                                                                                                                                                                                 CCACCGCCGTGCGGGCGCGCTTCTTCCCGTCCGAGGACCGCACGCCGCTGATCGATTGCCGCGACGAAGCGAAACGCCTTCTTGCCGAGATCTGACGGACGGGGGG.....................................................................................................  >  NC_014034/2600844‑2600949 ....................................................................................................GGGGGGCTCTGCCCCCCGTCCTTTCAGGACTCCCCCCGGGATATTTGAGGCAAGATGAACCCATGGTCTTTTCATCTTGTTCCAAATACCTCGGGGGGCGAATTGGC  <  NC_014034/2640266‑2640166 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG