New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 392468	33 (0.160)	46 (0.220)	27/174	18.1	0.73	intergenic (‑116/+27)	RCAP_rcc00363/trmD	hypothetical protein/tRNA (guanine‑N1)‑methyltransferase
	?	NC_014034	2880583 =	1 (0.000)					coding (1002/1053 nt)	pdxA	4‑hydroxythreonine‑4‑phosphate dehydrogenase
Rejected: Position hash score below cutoff.

GCCATTTCATCTTGCCTCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGG.................................................................................................................  >  NC_014034/392414‑392468 ....................................................................CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGGC  >  NC_014034/2880583‑2880682                                                        |||||||||||||                                                                                                     tcctTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGC                                                                     <  2:2276628/97‑1 (MQ=37)   ctTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCG                                                                   >  1:2986332/3‑101 (MQ=25)   ctTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCG                                                                   >  1:3807905/3‑101 (MQ=25)     TTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCG                                                                 >  2:2947242/1‑101 (MQ=17)      TTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGA                                                                >  1:4091452/1‑101 (MQ=17)       TCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGAT                                                               >  2:2107955/1‑101 (MQ=17)         ATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCA                                                             >  2:4155814/1‑101 (MQ=17)            TTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCCCGATCAGAC                                                          >  2:1138059/1‑101 (MQ=12)             TGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACT                                                         >  1:1559229/1‑101 (MQ=17)                tTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTG                                                      >  1:549121/2‑101 (MQ=11)                 TCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGC                                                     >  1:291401/1‑101 (MQ=1)                  CAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCG                                                    >  1:886195/1‑101 (MQ=1)                   AAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGG                                                   >  2:2213265/1‑101 (MQ=1)                    AATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCCTCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGG                                                  >  1:428392/1‑101 (MQ=0)                      TATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCT                                                >  2:1194213/1‑101 (MQ=1)                        TCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGG                                              >  2:3637480/1‑101 (MQ=1)                           CGGGGGTCGGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCT                                           <  2:1381539/101‑1 (MQ=0)                           CGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCT                                           >  1:2826244/1‑101 (MQ=1)                            GGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTT                                          >  1:485742/1‑101 (MQ=11)                            GGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTT                                          >  2:213902/1‑101 (MQ=11)                              GGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGACAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGC                                        >  2:786280/1‑101 (MQ=0)                               GGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCC                                       >  1:193136/1‑101 (MQ=1)                                 TCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGG                                     >  1:642726/1‑101 (MQ=1)                                  CCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGT                                    >  1:1924737/1‑101 (MQ=1)                                   CGGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTG                                   >  1:2121218/1‑101 (MQ=1)                                    GGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTTGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGC                                  >  1:3792152/1‑101 (MQ=0)                                    GGGGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGC                                  >  2:2797885/1‑101 (MQ=1)                                      gggggcgcCCCCGGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCC                                <  1:1563982/93‑1 (MQ=255)                                      GGGCAGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCC                                >  1:4331547/1‑101 (MQ=1)                                         caGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCA                             >  1:2218332/3‑101 (MQ=14)                                          aGAGCCCCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAA                            >  2:1123010/2‑101 (MQ=14)                                             cCCCCGGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGT                         <  1:3841074/100‑1 (MQ=17)                                              cccggGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTC                        <  1:2456568/96‑1 (MQ=17)                                               CCCGGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCA                       <  2:4406201/101‑1 (MQ=17)                                                CCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCAT                      >  1:3743941/1‑101 (MQ=32)                                                CCCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCAT                      >  1:3678501/1‑101 (MQ=32)                                                 CCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATA                     <  2:549073/101‑1 (MQ=32)                                                 CCGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATA                     >  1:1283564/1‑101 (MQ=32)                                                  CGGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAG                    <  2:359677/101‑1 (MQ=32)                                                   GGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGG                   >  2:3976101/1‑101 (MQ=32)                                                   GGCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGG                   >  2:1897858/1‑101 (MQ=32)                                                    GCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGC                  >  2:3857720/1‑101 (MQ=32)                                                    GCGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGC                  <  2:2686490/101‑1 (MQ=32)                                                     CGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCC                 <  2:642665/101‑1 (MQ=32)                                                     CGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCC                 >  2:801628/1‑101 (MQ=32)                                                     CGGCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCC                 <  1:14945/101‑1 (MQ=32)                                                       gccCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGT               <  2:1910149/98‑1 (MQ=32)                                                        CGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTG              >  1:1359278/1‑101 (MQ=31)                                                        CGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTG              <  2:1559124/101‑1 (MQ=31)                                                           GTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCA           <  2:4331255/101‑1 (MQ=1)                                                           GTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCA           >  2:3926327/1‑101 (MQ=1)                                                           GTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCA           >  2:1822218/1‑101 (MQ=1)                                                            TCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCAT          <  1:3968534/101‑1 (MQ=1)                                                              ACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGA        >  2:1821586/1‑101 (MQ=1)                                                                AGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATC      <  1:4469748/101‑1 (MQ=1)                                                                 GCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCG     <  2:367633/101‑1 (MQ=1)                                                                  CCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGG    >  1:2921637/1‑101 (MQ=1)                                                                   CGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGG   >  1:3047942/1‑101 (MQ=1)                                                                   CGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGG   >  1:1855608/1‑101 (MQ=1)                                                                   CGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGG   >  2:683388/1‑101 (MQ=1)                                                                   CGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGG   >  1:1126798/1‑101 (MQ=1)                                                                   CGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCAATGATCGGG   >  1:784799/1‑101 (MQ=1)                                                                    GCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGGC  <  2:1623910/101‑1 (MQ=1)                                                                    GCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGGC  <  1:2798101/101‑1 (MQ=1)                                                        |||||||||||||                                                                                                     GCCATTTCATCTTGCCTCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGG.................................................................................................................  >  NC_014034/392414‑392468 ....................................................................CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGCTGGCCTTGCCGGTGCCCGCAATGTCATAGGCCGTGCCATGATCGGGC  >  NC_014034/2880583‑2880682 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG