New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4332016 =	NA (NA)	14 (0.110)	8/160	NT	NA	noncoding (3/32 nt)	REP326 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP326 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	4332047 =	NA (NA)					intergenic (+43/‑69)	proP/pmrR	proline/glycine betaine transporter/putative membrane‑bound BasS regulator

TTTCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4332121‑4332016 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggccaATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTAAC  >  NC_000913/4332047‑4332144                                                                                                                                                                                                              TTTCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACAga                                                                                                          >  2:2430632/1‑98   TCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAG                                                                                                        >  2:3745595/1‑100   TCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAG                                                                                                        >  1:1709370/1‑100   TCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAACACAGCGTCACATCAG                                                                                                        >  2:3039986/1‑100    CATTGCACTCTCCTCCGTTAACCTGGAGGATAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGG                                                                                                       <  2:629865/100‑1    CATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGG                                                                                                       >  2:1108756/1‑100     ATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGGC                                                                                                      >  1:1374528/1‑100     ATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGGC                                                                                                      <  1:3438054/100‑1                            GGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATGTGACGCTGTCTTATCAGGCCAATTGAACTCTTAAGGTTCACT                                                                               <  2:2425189/100‑1                                                                     GTTCAATTGGCCTGATAAGACAGCGTCACATCAGGCCAATTTAACTCTTAAGGTTAACTTAATCTCTGACGAGCATACTCTCCTCCAGGTTAACGGAGGA                                      >  1:155598/1‑100                                                                     GTTCAATTGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGA                                      >  2:3681657/1‑100                                                                       TCAATTGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGA                                    >  1:1452808/1‑100                                                                        CAATTGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTAACGCGCATACTCTCCTACAGGTTAACGGAGGAGA                                    >  1:2681601/1‑99                                                                          ATTGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTG                                 >  2:2065870/1‑100                                                                            TGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGTGCATACTATACTCAAGGATAACGAAGGAAAGTGCA                               >  1:3780553/1‑100                                                                            TGGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCA                               >  2:3296912/1‑100                                                                             GGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTGTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAA                              >  2:2413481/1‑100                                                                             GGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAA                              >  1:1528215/1‑100                                                                             GGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATAATCTACTCCAAGTTAAAGGAAGAGAaaacaa                              >  1:483878/1‑94                                                                             GGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACACGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAA                              >  1:1472225/1‑100                                                                             GGCCTGATAAGACAGCGTCACATCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTAACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAA                              >  1:3103787/1‑100                                                                                CTGATAATACAGCGACACATCAGGCCAATTGAACTCTTAAGGTTCACTTCATCTCTGACACGCATACTCTCCTCAAGGTTAACGGAGGAGAGCCCAATGA                           >  2:646414/1‑100                                                                                                   TCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAG        <  1:3024326/100‑1                                                                                                   TCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAG        <  1:3582539/100‑1                                                                                                   TCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAG        <  1:3342299/100‑1                                                                                                   TCAGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTAAAATGAAAAACCGTGTTTATGAAAG        <  2:2004952/100‑1                                                                                                     AGGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTT      <  2:2908574/100‑1                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTTCTCCAGGTTAACGGAGGAGAATGCAATGAAAAACCGTGTTTATTAAAGT       >  1:765677/1‑98                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTT     >  2:2639399/1‑100                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTT     >  2:1299172/1‑100                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTT     >  1:1073343/1‑100                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTT     >  2:3789631/1‑100                                                                                                      GGCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACAGAGGAGAGAGCAATGAAAAACCGTGTTTATGAAAGTTT     >  1:1752879/1‑100                                                                                                       GCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGGGTGCAATGAAAAACCGTGTTTATGAAAGTTTA    <  1:3722678/100‑1                                                                                                       GCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTA    <  2:2214868/100‑1                                                                                                       GCCAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTA    <  2:1019383/100‑1                                                                                                         CAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTAAC  <  1:3134052/100‑1                                                                                                         CAATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTAAC  >  1:1266285/1‑100                                                                                                                                                                                                              TTTCATTGCACTCTCCTCCGTTAACCTGGAGGAGAGTATGCGCGTCAGAGATTAAGTGAACCTTAAGAGTTCAATTGGCCTGATAAGACAGCGTCACATCAGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4332121‑4332016 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggccaATTGAACTCTTAAGGTTCACTTAATCTCTGACGCGCATACTCTCCTCCAGGTTAACGGAGGAGAGTGCAATGAAAAACCGTGTTTATGAAAGTTTAAC  >  NC_000913/4332047‑4332144

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.