New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1405665 =	35 (0.370)	8 (0.090)	8/182	NT	20.3%	noncoding (87/96 nt)	mcaS	motility and biofilm regulator sRNA
	?	NC_000913	1405694 =	31 (0.360)					noncoding (58/96 nt)	mcaS	motility and biofilm regulator sRNA

CCTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATA  >  NC_000913/1405552‑1405819                                                                                                                                               |                                                                                                                              ccTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTac                                                                                                                          >  1:181171/1‑148 (MQ=255)          tGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACAcagcag                                                                                                                 <  2:181171/148‑1 (MQ=255)                 gcggcgTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATcc                                                                                                          >  1:1091647/1‑148 (MQ=255)                     cgTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGt                                                                                                      <  2:1091647/148‑1 (MQ=255)                                   gACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGt                                                                                                                            >  3:1088413/1‑112 (MQ=255)                                   gACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGt                                                                                                                            <  4:1088413/112‑1 (MQ=255)                                       ccacTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATc                                                                                              >  2:891919/1‑138 (MQ=255)                                       ccacTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATc                                                                                              <  1:891919/138‑1 (MQ=255)                                         acTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCcgcg                                                                                                       <  2:142464/127‑1 (MQ=255)                                         acTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCcgcg                                                                                                       >  1:142464/1‑127 (MQ=255)                                                 cgTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCGGCGTCTTAAATCCGGc                                                                                          <  3:544978/132‑1 (MQ=255)                                                 cgTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCGGCGTCTTAAATCCGGc                                                                                          >  4:544978/1‑132 (MQ=255)                                                 cgTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTgcgc                                                                          >  3:395928/1‑148 (MQ=255)                                                 cacagtcaccggcgcagaggagacaatgccggatttaagacgcggatgcactgctgtgtgtactgTAGAGTCTGTCGACATCCGCCAGACTCTAc                                                                                                                               <  3:722441‑M1/30‑1 (MQ=255)                                                 cacagtcaccggcgcagaggagacaatgccggatttaagacgcggatgcactgctgtgtgtactgTAGAGTCTGTCGACATCCGCCAGACTCTAc                                                                                                                               >  4:722441‑M1/66‑95 (MQ=255)                                                      ttAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTg                                                                     >  2:70950/1‑148 (MQ=255)                                                          tCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACtg                                                                 <  1:70950/148‑1 (MQ=255)                                                             cGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCt                                                                                                    <  1:396983/110‑1 (MQ=255)                                                             cGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCt                                                                                                    >  2:396983/1‑110 (MQ=255)                                                             cGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTgtgt                                                              >  2:411545/1‑148 (MQ=255)                                                                 aTTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTtata                                                          <  1:411545/148‑1 (MQ=255)                                                                                  gCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACtgtg                                                               >  2:354869/1‑126 (MQ=255)                                                                                  gCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACtgtg                                                               <  1:354869/126‑1 (MQ=255)                                                                                       cTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTg                                                                     >  1:554952/1‑115 (MQ=255)                                                                                       cTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTg                                                                     <  2:554952/115‑1 (MQ=255)                                                                                          cAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACgg                                                      <  2:243336/127‑1 (MQ=255)                                                                                          cAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACgg                                                      >  1:243336/1‑127 (MQ=255)                                                                                               ttAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTttct                            <  4:395928/148‑1 (MQ=255)                                                                                                     cTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTg                      >  1:843559/1‑148 (MQ=255)                                                                                                             aaaaaTAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCAtt                                                                                       <  4:760049/75‑1 (MQ=255)                                                                                                             aaaaaTAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCAtt                                                                                       >  3:760049/1‑75 (MQ=255)                                                                                                                aaTAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAAttt                               >  3:882815/1‑128 (MQ=255)                                                                                                                aaTAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAAttt                               <  4:882815/128‑1 (MQ=255)                                                                                                                 gtagagtctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACtgtg                                                               <  3:722441‑M2/65‑1 (MQ=255)                                                                                                                 gtagagtctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACtgtg                                                               >  4:722441‑M2/31‑95 (MQ=255)                                                                                                                    GAGTCTGTCGACATCCGCCAGACTCTACAGTACACAcagc                                                                                                                   >  2:458868‑M1/1‑40 (MQ=255)                                                                                                                    GAGTCTGTCGACATCCGCCAGACTCTACAGTACACAcagc                                                                                                                   <  1:458868‑M1/40‑1 (MQ=255)                                                                                                                      gtctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCa                         <  2:990851‑M2/103‑1 (MQ=255)                                                                                                                      gtctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCa                         >  1:990851‑M2/26‑128 (MQ=255)                                                                                                                       tctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAAc                                               <  3:603196‑M2/81‑1 (MQ=255)                                                                                                                       tctggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAAc                                               >  4:603196‑M2/25‑105 (MQ=255)                                                                                                                         TGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAAtata  >  2:843559‑M1/1‑148 (MQ=255)                                                                                                                          ggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCg                                                                                            >  1:307601‑M2/22‑57 (MQ=255)                                                                                                                          ggcggatgtcgacagactctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCg                                                                                            <  2:307601‑M2/36‑1 (MQ=255)                                                                                                                               cATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATaa                                                         >  3:733170/1‑87 (MQ=255)                                                                                                                               cATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATaa                                                         <  4:733170/87‑1 (MQ=255)                                                                                                                                 tCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGAGTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGTCAg                  <  4:197051/124‑1 (MQ=255)                                                                                                                                 tCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAg                  >  3:197051/1‑124 (MQ=255)                                                                                                                                     ccAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTttctt                           >  4:1010714/1‑111 (MQ=255)                                                                                                                                     ccAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTttctt                           <  3:1010714/111‑1 (MQ=255)                                                                                                                                            ctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTttct                            <  2:1096128‑M2/100‑1 (MQ=255)                                                                                                                                            ctaCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTttct                            >  1:1096128‑M2/4‑103 (MQ=255)                                                                                                                                              aCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTg                                                                     >  1:357616‑M2/2‑60 (MQ=255)                                                                                                                                              aCAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTg                                                                     <  2:357616‑M2/59‑1 (MQ=255)                                                                                                                                               |                                                                                                                              CCTATTATTTGATTCAGCGGCGTGATAGTCGCCAGACACCACTGACCGCGTCATTAATCACGCAATTCCGGCGAGAATGCGGCTATCTGCAAAGTTAAAACTGCATAAAAAAATAGAGTCTGTCGACATCCGCCAGACTCTACAGTACACACAGCAGTGCATCCGCGTCTTAAATCCGGCATTGTCTCCTCTGCGCCGGTGACTGTGTTATAACGGTTTTAACCTTTAGTTGCCAATTTTCTTCAGTGACAGATTTCACGAAAATATA  >  NC_000913/1405552‑1405819

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.