New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	313710 =	2 (0.030)	54 (0.920)	43/296	0.3	96.4%	coding (321/594 nt)	rclC	reactive chlorine species (RCS) stress resistance inner membrane protein
	?	CP009273	1462167 =	NA (NA)					noncoding (1331/1331 nt)	IS2	repeat region

AATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTT  >  CP009273/1462019‑1462313                                                                                                                                                     |                                                                                                                                                   aaTGGAGATCCGCCAAGCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCt                                                                                                                                                    >  2:114874/1‑149 (MQ=255)       gaTACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGAttt                                                                                                                                              <  1:752090/149‑1 (MQ=255)          aCGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTgac                                                                                                                                           >  1:773010/1‑147 (MQ=255)               aaTCAGCGGAGGATTCCCTCTGGTGGTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCtat                                                                                                                                      <  2:745833/149‑1 (MQ=255)               aaTCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCtat                                                                                                                                      <  2:908665/149‑1 (MQ=255)                   aGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATAttt                                                                                                                                  >  1:790272/1‑149 (MQ=255)                      ggAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACCAGAACCCTGGATTTGCCCCTATATTTCCa                                                                                                                               <  1:620373/149‑1 (MQ=255)                             tCCCTCTGGGGTTTGCCGGGGTTATTCGGGTGCAGGATAAAGCTTTGCTGGAGATTGGCCGTGGCGCTACGCTAACACGGAAGGCTATTGACAGTTTTGAACATCACAGGGAAAGAACCCCGGATTTGGCCCTATATTTCCAGACctct                                                                                                                        >  2:278180/1‑149 (MQ=255)                               ccTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGt                                                                                                                      <  1:329746/149‑1 (MQ=255)                                ctctGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCCAGGGACAAAGAGCCTGGATTTGCCCCTATATTTCCCAACATCTGtt                                                                                                                     >  2:50484/1‑149 (MQ=255)                                    ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAGTTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGGACATCATGGGACAGGAACCCTGGGTTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                                 >  2:25573/1‑149 (MQ=255)                                    ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                                 <  1:273783/149‑1 (MQ=255)                                     gggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGTCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCAc                                                                                                                <  2:701891/149‑1 (MQ=255)                                                     ttCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCATTGGCGTTACGCGAACAATGCATGATATTTACAGTTTTGAACATCTTGGGACTAGAACCCTGGATCTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGc                                                                                                <  2:13380/149‑1 (MQ=37)                                                        gggTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                             <  2:920851/149‑1 (MQ=255)                                                        gggTACAGGATAAACCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                             >  2:587455/1‑149 (MQ=255)                                                          gTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTACCACTTAACCCATTACAAGCCCGCt                                                                                           >  2:457507/1‑149 (MQ=255)                                                           tACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTg                                                                                          <  1:503781/149‑1 (MQ=255)                                                                gATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCa                                                                                     >  2:695199/1‑149 (MQ=255)                                                                      ggtttGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACCTCTGTTATCACTTAACCCATTATAATCCCGCTGCCGCAGATAtt                                                                               >  2:706721/3‑149 (MQ=255)                                                                        tttGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGGCAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAGGCCCGCTGCCGCAGGTATTcc                                                                             >  1:292313/1‑149 (MQ=255)                                                                          tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCg                                                                           <  1:805770/149‑1 (MQ=255)                                                                              ggAAATTGGCAGTGGCCCTACGCTAACAATGCAGGATCTTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgc                                                                       <  2:796118/149‑1 (MQ=255)                                                                                 aaTTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgag                                                                    <  2:930522/149‑1 (MQ=255)                                                                                    tcgCAGTGGCGCTACGCGAACAATGCACGATATTCACAGTTTTGAACATCACGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgagcga                                                                 <  1:542812/147‑1 (MQ=255)                                                                                       cAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATaa                                                              >  1:197602/1‑149 (MQ=255)                                                                                         gTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAAcc                                                            >  2:160620/1‑149 (MQ=255)                                                                                         ctGGCGGTACGATAACAAGGCAGGATATTGACAGTTTTGAACATCAGGGGACAAGAACCCTGGTTTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCGGCCGCAGATATTCCCGTGGCGAGCGATAAcc                                                            <  2:19171/148‑1 (MQ=21)                                                                                               ctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGCTATTCCCGTGGCGAGCGATAACCCAgcgc                                                      >  1:67623/1‑149 (MQ=255)                                                                                               ctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcgc                                                      >  2:142673/1‑149 (MQ=255)                                                                                               ctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATGTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTCCAAGCCCGCGCCCGCAGATATTCCCGTGCCGAGCGATAACCCCgcgc                                                      >  2:142510/1‑149 (MQ=21)                                                                                                           tGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                                          <  1:114874/149‑1 (MQ=255)                                                                                                             cAGGATATTGACAGGTTTGAACATCCTGGGTCACGAGCCCAGGATTTGCTCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                                        >  1:705602/1‑149 (MQ=17)                                                                                                               ggATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt                                      <  1:276542/149‑1 (MQ=255)                                                                                                                 atatTGACAGTTTTGAACATCATGGGACAAGAGCCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGGGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTc                                    <  1:40285/149‑1 (MQ=255)                                                                                                                       aCAGTTTTGAACATCATGGGGCAAGAACCCTGGTTTTGCGCCTATATTTCCAGAGATGTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtata                              >  2:87397/1‑149 (MQ=17)                                                                                                                       aCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTCTGCGGATGCCATTCGTtata                              >  1:572728/1‑149 (MQ=255)                                                                                                                       aCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtgta                              >  1:110888/1‑149 (MQ=255)                                                                                                                          gTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCATAGCCCTACCGATAACCCCGCGCACGATGCGGATGCCATTCGTTATAATg                           >  1:453529/1‑149 (MQ=17)                                                                                                                          gTTTCGAACACCATGGGACAAGAACTCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCTAGCGATAACTCTGCGCACTATGCGGATGCCATTCGTTATAATg                           <  1:608044/149‑1 (MQ=14)                                                                                                                           ttttGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGc                          >  2:152223/1‑149 (MQ=255)                                                                                                                            tttGAACATCATGGGACAAGAACCCTGGATTTGCCCCTACATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCt                         >  2:400150/1‑149 (MQ=255)                                                                                                                                aaCATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACGATGCGGATGCCATTCGTTATAATGCTCGaa                     >  1:22873/1‑149 (MQ=255)                                                                                                                                  catcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGACCg                   >  1:481590/1‑149 (MQ=255)                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCTGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGc                  <  1:587455/149‑1 (MQ=255)                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCCACCGc                  >  2:372103/1‑149 (MQ=255)                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATGCGTTATAATGCTCGAACGc                  >  2:557309/1‑149 (MQ=255)                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATAATTTGAAACAGTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGc                  <  1:457507/149‑1 (MQ=14)                                                                                                                                           aCAAGAACCCTGGATTTGCCCCTATGTTTCCAGACATCTGTTACCACTTAACCCATGACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGTTAACCCAGCGCACTATGCGGATGCCATTCGTTATCTAGCTCGAGCGCCTCTGCaa          <  2:827838/149‑1 (MQ=11)                                                                                                                                                   ccTGGATTTGCCCCTATATTTCCCGACATCGGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGAGAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCttt  >  2:656186/1‑149 (MQ=2)                                                                                                                                                     |                                                                                                                                                   AATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTT  >  CP009273/1462019‑1462313

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.