New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5545321 =	NA (NA)	46 (0.660)	42/278	1.0	88.6%	intergenic (‑461/+416)	rpsF/rlmB	30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB
	?	NC_002947	= 5621245	6 (0.080)					coding (19/774 nt)	PP_4939	hypothetical protein

GAGAGTGGCCCAAATGGCATCGGCGTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAag‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5545468‑5545321 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCATGCCGCT  <  NC_002947/5621245‑5621102                                                                                                                                                                                                                                                                                                        gacAGTGGCCCAAATTGCATCGGCGTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAA                                                                                                                                                 <  8:247600/146‑1                   ATCGGCGTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCG                                                                                                                               >  8:83317/1‑149                      GGCGTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAGCAACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGT                                                                                                                              <  1:98715/148‑1                         GTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGAC                                                                                                                           >  4:78461/1‑147                               CCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCCCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTG                                                                                                                   >  7:176892/1‑149                                 CTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGG                                                                                                                 >  5:280319/1‑149                                 CTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAG                                                                                                                        >  1:55173/1‑142                                 CTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAG                                                                                                                        <  2:55173/142‑1                                    TCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCG                                                                                                               <  8:162920/148‑1                                         ACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGA                                                                                                         >  6:73764/1‑149                                                    TGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAA                                                                                               <  7:83317/148‑1                                                    TGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAA                                                                                               <  3:78461/148‑1                                                          CGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCC                                                                                        <  6:250956/149‑1                                                              TAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGA                                                                                    <  7:24789/149‑1                                                              TAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGA                                                                                    <  3:190444/149‑1                                                                gacGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACACT‑GGGTTATCTTTTGTTTGCTAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGA                                                                                  <  2:312910/146‑1                                                                   GAGTGAACTCTTCGCCGCCAATGTCCACGCGCGCGTGGTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTTTCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGAGCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTT                                                                               <  8:176892/149‑1                                                                          CACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCG                                                                        <  5:73764/149‑1                                                                           ACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCG                                                                        >  5:282001/1‑148                                                                             TTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTT                                                                              >  5:30843/1‑140                                                                             TTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCCCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTT                                                                              <  6:30843/140‑1                                                                                    CCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACATCACC                                                              <  8:332672/149‑1                                                                                    CCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACC                                                              >  2:195443/1‑149                                                                                     CATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCG                                                             >  7:305976/1‑149                                                                                         GACCCCGCGCGCCTGTTTTTTTCGCTAGATAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGGGACGTCACGCTGGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGCCACCCTTGAGAGTTTAGATCGCTAACACACCGCGCC                                                         >  6:293646/1‑149                                                                                         GACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGC                                                          <  3:305714/148‑1                                                                                          ACCCCGCGCACCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCC                                                         >  7:3964/1‑148                                                                                             CCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTT                                                                                                                      >  2:3343/1‑84                                                                                             CCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTT                                                                                                                      <  1:3343/84‑1                                                                                              CGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTC                                                    <  6:282001/149‑1                                                                                                  CGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGA                                                <  6:203018/149‑1                                                                                                    CCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCAAGCTCGTCGTGACCAGTTGTGGGAGGTTCGATATGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGAGCCCATTCGCGAGG                                              >  7:227975/1‑149                                                                                                     CTGTTTTTTTCGCTAGAAAG‑AACAGTGGGGTTATCTTTTGTTTGATAGAAGTGACTTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCT                                                                      >  1:25529/1‑125                                                                                                     CTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCT                                                                      <  2:25529/124‑1                                                                                                      TGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTA                                            >  6:274128/1‑149                                                                                                                 CTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTT                                                                              <  5:174585/104‑1                                                                                                                 CTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTT                                                                              >  6:174585/1‑104                                                                                                                  TAGAAAG‑AACAGT‑GGGTTATCTTTTGATTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCG                                  >  1:226658/1‑147                                                                                                                     AAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGAC                             >  6:386195/1‑149                                                                                                                                       TCTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCT              <  1:195443/148‑1                                                                                                                                        CTTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGT            >  3:363942/1‑149                                                                                                                                         TTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGG                        <  6:235880/136‑1                                                                                                                                         TTTTGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGG                        >  5:235880/1‑136                                                                                                                                            TGTTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCA         <  2:421684/148‑1                                                                                                                                              TTTGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCATGC      <  4:363942/149‑1                                                                                                                                                TGATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCATGCC     <  2:226658/148‑1                                                                                                                                                  ATAGAAGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTGCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCATGCCGCT  <  3:303682/149‑1                                                                                                                                                                                                                                                                                                        GAGAGTGGCCCAAATGGCATCGGCGTTAATCCCTGTCGGCACAGCTTGCTGTGACCACGTATAGAAGAGTGAACACTTCGCCGCCATTGACCCCGCGCGCCTGTTTTTTTCGCTAGAAAG‑AACAGT‑GGGTTATCTTTTGTTTGATAGAag‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5545468‑5545321 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTGACGTCACGCTCGTCGTGACCAGTTGTGGGCGGTTCGATCTGCTCAAAGACACCCTTGAGAGTTTCGATCGCTACAACACCGCGCCCATTCGCGAGGTATTCATCACCGAAGACTCTGGCGACGATGCTGTGCATGCCGCT  <  NC_002947/5621245‑5621102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.