New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2698379 =	38 (0.670)	3 (0.050)	3/250	NT	7.8%	intergenic (‑83/+59)	PP_2364/PP_2365	hypothetical protein/AraC family transcriptional regulator
	?	NC_002947	2698420 =	34 (0.620)					intergenic (‑124/+18)	PP_2364/PP_2365	hypothetical protein/AraC family transcriptional regulator

GTACCTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCATAGCCCAAGG  >  NC_002947/2698233‑2698520                                                                                                                                                    |                                                                                                                                              gTACCTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGcc                                                                                                                                             <  1:335340/149‑1 (MQ=255)   aCCTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGt                                                                                                                                           >  2:222119/1‑149 (MQ=255)     cTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAg                                                                                                                                               <  8:57959/143‑1 (MQ=255)     cTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAg                                                                                                                                               >  7:57959/1‑143 (MQ=255)        tATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTAGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGGACAGGCAGGGCGAGCCGTCAGCg                                                                                                                                      >  2:296948/1‑149 (MQ=255)        tATGTTGCCGGAGTAGAAATCGCAGTCGAACTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCATGGCGAGCCGTCAg                                                                                                                                        <  7:135917/147‑1 (MQ=255)             tGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAg                                                                                                                                 >  1:7784/1‑149 (MQ=255)                cgtaGTCGAAATCGCAGGCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCTGGCATTGTTGTAGGGCTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGccc                                                                                                                              <  7:320265/146‑1 (MQ=255)                cGGAGTCTAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGccc                                                                                                                              <  7:173699/149‑1 (MQ=255)                    gTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTAt                                                                                                                          <  4:4171/149‑1 (MQ=255)                        aaaTCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATgcgg                                                                                                                      <  5:37934/149‑1 (MQ=255)                             tcatcgatgtggcgggggccttgggctatgacagcccaagtgccttcgccagcatgttcaagcgccagttcggtaccacgcccagtcagttcttcagataacctgaagtccacgcatttGc                                                                                                                                              >  4:158827‑M1/120‑121 (MQ=255)                             tcatcgatgtggcgggggccttgggctatgacagcccaagtgccttcgccagcatgttcaagcgccagttcggtaccacgcccagtcagttcttcagataacctgaagtccacgcatttGc                                                                                                                                              <  3:158827‑M1/2‑1 (MQ=255)                                        gcgggggccttgggctatgacagcccaagtgccttcgccagcatgttcaagcgccagttcggtaccacgcccagtcagttcttcagataacctgaagtccacgcatttGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGc                                                                                                       >  3:177764‑M1/109‑149 (MQ=255)                                        gCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGc                                                                                                       >  6:151393/1‑148 (MQ=255)                                          aGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCaaa                                                                                                    >  1:313407/1‑149 (MQ=255)                                            gggccttgggctatgacagcccaagtgccttcgccagcatgttcaagcgccagttcggtaccacgcccagtcagttcttcagataacctgaagtccacgcatttGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAAt                                                                                                   >  5:364155‑M1/105‑149 (MQ=255)                                              gccttgggctatgacagcccaagtgccttcgccagcatgttcaagcgccagttcggtaccacgcccagtcagttcttcagataacctgaagtccacgcatttGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGc                                                                                                 >  5:190103‑M1/103‑149 (MQ=255)                                                       tCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCa                                                                                       <  2:313407/149‑1 (MQ=255)                                                           ggTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATAGCGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGt                                                                                    >  1:265811/1‑149 (MQ=255)                                                             tCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTAt                                                                                 >  4:198941/1‑149 (MQ=255)                                                               aTGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATc                                                                                <  5:151393/148‑1 (MQ=255)                                                                  tgCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTg                                                                              >  4:94971/1‑147 (MQ=255)                                                                                gCGGTCATTGTTGTAGGTGGACTGTATA‑CGGGTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCg                                                              <  4:62146/149‑1 (MQ=255)                                                                                gCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTggg                                                                >  6:32625/1‑147 (MQ=255)                                                                                gCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTggg                                                                <  5:32625/147‑1 (MQ=255)                                                                                 cGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGt                                                             <  2:7784/149‑1 (MQ=255)                                                                                  gggCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTg                                                            >  2:185380/1‑149 (MQ=255)                                                                                         gttgtAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCaa                                                                                                     <  6:111937/101‑1 (MQ=255)                                                                                         gttgtAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCaa                                                                                                     >  5:111937/1‑101 (MQ=255)                                                                                                      tGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGaa                                        >  2:320005/1‑149 (MQ=255)                                                                                                        tata‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACa                                      >  2:290198/1‑149 (MQ=255)                                                                                                           a‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTgaa                                                                            >  8:285926/1‑108 (MQ=255)                                                                                                           a‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTgaa                                                                            <  7:285926/108‑1 (MQ=255)                                                                                                           a‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTg                                                            >  4:335261/1‑124 (MQ=255)                                                                                                           a‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTg                                                            <  3:335261/124‑1 (MQ=255)                                                                                                               gCTTGGCTGGGATGCTGTGCAAGGACAGGCAGGGCGAGCCGTCAGGGGACATCGCTCATGCGGAGACCGAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTgg                                <  1:296948/149‑1 (MQ=255)                                                                                                                                 gCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGt              >  2:277001/1‑149 (MQ=255)                                                                                                                                  cAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGGACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGt              >  6:333155/1‑148 (MQ=255)                                                                                                                                  cAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTc             <  1:320005/149‑1 (MQ=255)                                                                                                                                     gcaCAGGCAGGGCGAGCCGTCAGCGGACATCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCTCGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTAcc                                                       <  8:324627/102‑1 (MQ=255)                                                                                                                                     gAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCa            >  5:44462/1‑147 (MQ=255)                                                                                                                                     gAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCa            >  5:104222/1‑147 (MQ=255)                                                                                                                                     gAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCATa          <  6:104222/149‑1 (MQ=255)                                                                                                                                     gAACAGGCAGAGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAATAACTGACTGGGCGTGGTACAGAACTGGCGCTTGAACATGCTCGCGAAGGCACTTGGGCTGTCa            >  6:342045/1‑147 (MQ=255)                                                                                                                                       aCAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCATAGc        <  3:94971/149‑1 (MQ=255)                                                                                                                                             aggGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGATGTCATAGCCCAAgg  >  8:74010/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                              GTACCTGTATGTTGCCGGAGTCGAAATCGCAGTCGATCTGCAGGGGGGACAGCGTCACGGTCATGTGCCGGGCTCCTTTGCGGGCATTGTTGTAGGGGTACTGTATA‑CGGCTTGGCGGGGATGCTGTGCAAGAACAGGCAGGGCGAGCCGTCAGCGGACAGCCCGTATGCGGCGGGCCAGTGCCGGCAAATGCGTGGACTTCAGGTTATCTGAAGAACTGACTGGGCGTGGTACCGAACTGGCGCTTGAACATGCTGGCGAAGGCACTTGGGCTGTCATAGCCCAAGG  >  NC_002947/2698233‑2698520

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.