New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5099995 =	22 (0.760)	4 (0.170)	4/214	2.9	19.6%	intergenic (+33/+120)	PP_4488/phhR	hypothetical protein/sigma‑54 dependent transcriptional regulator
	?	NC_002947	5100077 =	15 (0.640)					intergenic (+115/+38)	PP_4488/phhR	hypothetical protein/sigma‑54 dependent transcriptional regulator
Rejected: Frequency below/above cutoff threshold.

ACGGCTGATACCTTGGAATCGGGGGCCCTGCGGGCCCCTATCGCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATCAAA  >  NC_002947/5099955‑5100226                                                                                                                           |                                                                                                                                                      aCGGCTGATACCTTGGAATCGGGGGCCCTGCGGGCCCCTATCGCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAAAGCACAAACATTTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCtt                                                                                                                            >  2:206486/1‑150 (MQ=255)         tACCTTGGAGTCGGGGGCCCTGCGGGCCCCTATCGCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACcaac                                                                                                                    <  1:510424/150‑1 (MQ=255)                         gCCCTGCGGGCCCCTATCGCGACACAAGGCCGGTCCCACAGATAATGCGCTCAGCCAGAGCACCGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACt                                                                                                    >  1:213557/1‑150 (MQ=255)                          cccTGCGGGCCCCTATCGCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGTACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACtt                                                                                                   <  2:293842/150‑1 (MQ=255)                                           GCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATccc                                                                                  >  1:584277‑M1/1‑150 (MQ=255)                                               CACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACtt                                                                                                   <  2:9852‑M1/129‑1 (MQ=255)                                               CACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACtt                                                                                                   >  1:9852‑M1/1‑129 (MQ=255)                                                       gatctaCACAGACAACGCGCTCAGCCATATCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTgg                                                                      >  2:226240‑M1/7‑150 (MQ=255)                                                         ctcccacaggtaatacgctgtgctctggctgagcgcattatctgtgggagcggccttgtgtcgcgaAAGGACTGCAACTCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTc                                                                                <  2:99041‑M2/72‑1 (MQ=255)                                                         ctcccacaggtaatacgctgtgctctggctgagcgcattatctgtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTc                                                                                >  1:99041‑M2/67‑138 (MQ=255)                                                            ccacaggtaatacgctgtgctctggctgagcgcattatctgtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAAc                                                                             <  1:270686‑M2/75‑1 (MQ=255)                                                            ccacaggtaatacgctgtgctctggctgagcgcattatctgtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAAc                                                                             >  2:270686‑M2/64‑138 (MQ=255)                                                            ccACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTATTTGACTACCACCTACACCGCCGCCATCACAACCTATTAATCCCGCAACTTGTTGGCAAtt                                                                 >  2:7129/1‑150 (MQ=255)                                                            CCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAAtt                                                                 <  2:285473‑M1/150‑1 (MQ=255)                                                             CACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTtggcagatc                                                                <  1:226240‑M1/150‑5 (MQ=255)                                                              ACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGCCCTTGTGTCGCCAAAGGACTGCAACGCAGTCACAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCaatttt                                                               <  1:111752‑M1/150‑3 (MQ=255)                                                               CAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTc                                                              <  2:161192‑M1/150‑1 (MQ=255)                                                                    aaTGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGTAACGCAGTCCCACGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGtgtg                                                         <  1:271097/150‑1 (MQ=255)                                                                         gcTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCAAGGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGaaa                                                    <  1:7129/150‑1 (MQ=255)                                                                           tCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAaca                                                  >  1:324798/1‑150 (MQ=255)                                                                             aGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACAcc                                                <  1:285473/150‑1 (MQ=255)                                                                               ccAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGt                                                                                                                                       <  1:346687/61‑1 (MQ=255)                                                                               ccAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGt                                                                                                                                       >  2:346687/1‑61 (MQ=255)                                                                               ccAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCa                                              <  1:161192/150‑1 (MQ=255)                                                                                        aGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGc                                     >  1:127207/1‑150 (MQ=255)                                                                                         gCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGcc                                    >  1:174006/1‑150 (MQ=255)                                                                                                 ccTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGccc                            <  2:213557/150‑1 (MQ=255)                                                                                                    gtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGac                         >  2:379383‑M2/24‑150 (MQ=255)                                                                                                         agcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTg                    >  2:677546‑M2/19‑150 (MQ=255)                                                                                                           cggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTggg                  <  1:379383‑M2/134‑1 (MQ=255)                                                                                                             gccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGaa                <  2:127207‑M2/136‑1 (MQ=255)                                                                                                                          aAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTc                                                              >  2:463936‑M2/2‑91 (MQ=255)                                                                                                                          aAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTc                                                              <  1:463936‑M2/90‑1 (MQ=255)                                                                                                                           aaGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATCaaa  <  2:324798/150‑1 (MQ=255)                                                                                                                           |                                                                                                                                                      ACGGCTGATACCTTGGAATCGGGGGCCCTGCGGGCCCCTATCGCGACACAAGGCCGCTCCCACAGATAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATCAAA  >  NC_002947/5099955‑5100226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.