New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 530939	150 (0.680)	37 (0.170)	13/180	19.9	0.17	intergenic (+17/+124)	valS/RCAP_rcc00497	valyl‑tRNA synthetase/UbiA prenyltransferase
	?	NC_014034	= 2941067	221 (0.900)					intergenic (‑730/+13)	RCAP_rcc02750/RCAP_rcc02751	hypothetical protein/N‑acetylmuramoyl‑L‑alanine amidase, family 2
Rejected: Position hash score below cutoff.

GTGATCGAGGAAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTC....................................................................................................  >  NC_014034/530830‑530939 ....................................................................................................AGGGGGGCTCTGCCCCCCGGCTGCGCCTCCCCCCGGGATATTTCCGGCAAGATGAAAGCCAAACCCGGCCTTCCCTTCATCTTGCTCCAAATATCCCGGGGGTATGGGGG  <  NC_014034/2941067‑2940968                                                                                                                                                                                                                              AAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCT                                                                                                     <  2:3941494/101‑1 (MQ=1)            AGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTG                                                                                                    <  1:3413751/101‑1 (MQ=1)              CCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCC                                                                                                  <  2:1378944/101‑1 (MQ=1)               CCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCC                                                                                                 <  2:3619024/101‑1 (MQ=1)               CCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCC                                                                                                 <  1:612201/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCC                                                                                               <  2:3757445/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCC                                                                                               <  2:367904/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCC                                                                                               <  2:3252824/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCC                                                                                               <  2:2402513/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCC                                                                                               <  1:481322/101‑1 (MQ=1)                 GCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAAAGGGGGTCTGCCCCC                                                                                               >  2:677722/1‑101 (MQ=0)                  CGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCC                                                                                              >  2:4499771/1‑101 (MQ=11)                  CGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCC                                                                                              <  2:3441706/101‑1 (MQ=11)                   GAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCG                                                                                             >  1:275657/1‑101 (MQ=31)                   GAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCG                                                                                             <  2:3228748/101‑1 (MQ=31)                    AAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGc                                                                                            >  1:2198575/1‑100 (MQ=14)                    AAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGc                                                                                            >  2:3574128/1‑100 (MQ=14)                    AAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGc                                                                                            >  2:2609139/1‑100 (MQ=14)                     AAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGct                                                                                           <  1:591446/101‑3 (MQ=14)                     AAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGct                                                                                           >  2:3326605/1‑99 (MQ=14)                     AAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCGTTGCACCCCGct                                                                                           >  2:1960189/1‑99 (MQ=255)                      AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGctt                                                                                          <  1:2172978/101‑4 (MQ=14)                      AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGctt                                                                                          >  2:2855740/1‑98 (MQ=14)                      AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGctt                                                                                          <  1:4792806/101‑4 (MQ=14)                      AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGctt                                                                                          <  1:557009/101‑4 (MQ=14)                      AACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGctt                                                                                          <  1:4866541/101‑4 (MQ=14)                       ACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttc                                                                                         <  1:2496375/101‑5 (MQ=14)                        CCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcg                                                                                        <  1:4139656/101‑6 (MQ=11)                        CCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcg                                                                                        <  2:3860618/101‑6 (MQ=11)                         CTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgc                                                                                       >  2:4759260/1‑95 (MQ=0)                         CTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgc                                                                                       <  2:1004211/101‑7 (MQ=0)                          TCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgct                                                                                      <  2:1377801/101‑8 (MQ=2)                          TCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgct                                                                                      >  1:1364667/1‑94 (MQ=2)                           CGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTTTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgctc                                                                                     >  1:4179575/1‑93 (MQ=9)                           CGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGCGGGCTCTGCCCCCCGcttcgctc                                                                                     <  2:866049/101‑9 (MQ=9)                             CCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgctccc                                                                                   <  2:3752380/101‑11 (MQ=16)                             CCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTCTGCCCCCCGcttcgctccc                                                                                   <  2:3316428/101‑11 (MQ=16)                                                                                                                                                                                                                    GTGATCGAGGAAGCCCGCGAAAACCTCGCCGCGCGCGCGGAAGAGGCGGCGAAGATCGGCGCGGCGCTGAAGCGTCTGGCCGAACTCGGATAAAGGAAGAAGGGGGGCTC....................................................................................................  >  NC_014034/530830‑530939 ....................................................................................................AGGGGGGCTCTGCCCCCCGGCTGCGCCTCCCCCCGGGATATTTCCGGCAAGATGAAAGCCAAACCCGGCCTTCCCTTCATCTTGCTCCAAATATCCCGGGGGTATGGGGG  <  NC_014034/2941067‑2940968 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG