New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3479309	22 (0.490)	4 (0.090)	4/236	NT	15.4%	coding (1953/2496 nt)	PP_3090	OmpA domain‑containing protein
	?	NC_002947	= 3479353	23 (0.540)					coding (1909/2496 nt)	PP_3090	OmpA domain‑containing protein

GGCGTTGTCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTCCGAAATTGGCGATCGACTGGGCGCGGTTGTCATGGGGC  >  NC_002947/3479210‑3479495                                                                                                                                                |                                                                                                                                               ggCGTTGTCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccgg                                                                                                                                          >  1:553959‑M2/1‑144 (MQ=255) ggCGTTGTCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccgg                                                                                                                                          >  1:777993‑M2/1‑144 (MQ=255) ggCGTTGTCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccgg                                                                                                                                          >  2:496397‑M2/1‑144 (MQ=255)        tCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCag                                                                                                                                   <  2:557579/150‑1 (MQ=255)          gAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTTGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCCCTTGCCGGTCTGGCCGGCGATTGCCGGGTCCCagta                                                                                                                                 >  2:165373/1‑150 (MQ=255)                   cgGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAg                                                                                                                        <  1:960144/150‑1 (MQ=255)                         aTCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTgcgc                                                                                                                  >  2:680759/1‑150 (MQ=255)                          tcaggCTCACGGATCGGGTCGCAAGAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTAACACCGGCCTCGCTGTCATCCACGTCCGTGCTCTTGCCGGTCTGCCGGGCGATGACCGGGCCCCACATGTCCGGCATGTGCGcc                                                                                                                 >  2:546768/4‑150 (MQ=255)                                                                               gTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAAc                                                                                                        <  2:398083/106‑1 (MQ=255)                                                                               gTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAAc                                                                                                        >  1:398083/1‑106 (MQ=255)                                                                                   tCCTGGTTGCCACCGGCCTCGCTGGCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAgtg                                                        >  1:35423/1‑150 (MQ=255)                                                                                            ccACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAAAGCCGGGTCGGCATGCTCGCGCCGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGgcc                                               >  2:1152965/1‑150 (MQ=255)                                                                                             cACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccggtggcaaccaggactacctgtatgccagccgccagatcacgttctatagcgaccagatccgtgagccagatgtaccgcgcatcctcgacaacg                                              <  2:607611‑M2/150‑99 (MQ=255)                                                                                              aCCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGTGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGgccgc                                             <  1:719976/150‑1 (MQ=255)                                                                                                    cTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccggtggcaaccaggactacctgtatgccagccgccagatcacgttctatagcgaccagatccgtgagccagatgtaccgcgcatcctcgacaacgccttcct                                       <  2:962463‑M2/150‑106 (MQ=255)                                                                                                       gCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTCCGaa                                    <  1:680759/150‑1 (MQ=255)                                                                                                            cAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATggccggtggcaaccaggactacctgtatgccagccgccagatcacgttctatagcgaccagatccgtgagccagatgtaccgcgcatcctcgacaacgccttcctgatgtcca                               >  1:962463‑M2/1‑37 (MQ=255)                                                                                                               cggcggCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCt                                                                                  <  1:267969/96‑1 (MQ=255)                                                                                                               cggcggCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCt                                                                                  >  2:267969/1‑96 (MQ=255)                                                                                                                      cATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTc                                        <  1:1172429/131‑1 (MQ=255)                                                                                                                      cATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTc                                        >  2:1172429/1‑131 (MQ=255)                                                                                                                           tctTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCAc                                                               >  2:176235/1‑103 (MQ=255)                                                                                                                           tctTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCAc                                                               <  1:176235/103‑1 (MQ=255)                                                                                                                               gCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTCCGAAATTGGCGATCGACTGGGCGCGGtt            >  2:179646/1‑150 (MQ=255)                                                                                                                                   gTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTCCGAAATTGGCGATCGACTGGGCGCGGTTGTCa        <  2:1143610/150‑1 (MQ=255)                                                                                                                                    tCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCAc                                                               <  2:430135/94‑1 (MQ=255)                                                                                                                                    tCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCAc                                                               >  1:430135/1‑94 (MQ=255)                                                                                                                                        gcgggcgATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGt                                                             <  2:1041339/92‑1 (MQ=255)                                                                                                                                        gcgggcgATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGt                                                             >  1:1041339/1‑92 (MQ=255)                                                                                                                                         cgggcgATggccggtggcaaccaggactacctgtatgccagccgccagatcacgttctatagcgaccagatccgtgagccagatgtaccgcgcatcctcgacaacgccttcctgatgtccagttcgcgcaactacatcgacagcctgcgg  >  1:607611‑M2/1‑8 (MQ=255)                                                                                                                                                |                                                                                                                                               GGCGTTGTCGAGGATGCGCGGTACATCTGGCTCACGGATCTGGTCGCTATAGAACGTGATCTGGCGGCTGGCATACAGGTAGTCCTGGTTGCCACCGGCCTCGCTGCCAGCGGCGGCCATGCTCTTGCCGGTCTGGCGGGCGATGGCCGGGTACCAGTAGTCCGGCAGGTGCGCCTTGAGAAACGCCGGGTCGGCATGCTCGCGCTGGCCCGGAGAAAGCATCACGTAAGTGTCCAGGGCCGCCTTTCCGAAATTGGCGATCGACTGGGCGCGGTTGTCATGGGGC  >  NC_002947/3479210‑3479495

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.