New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4963771 =	26 (0.490)	3 (0.060)	3/240	NT	10.4%	intergenic (‑117/+111)	fleS/fleQ	two‑component system sensor histidine kinase FleS/transcriptional regulator FleQ
	?	NC_002947	4963837 =	27 (0.540)					intergenic (‑183/+45)	fleS/fleQ	two‑component system sensor histidine kinase FleS/transcriptional regulator FleQ

GGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCACCGCCCTGGCGGCT  >  NC_002947/4963623‑4963917                                                                                                                                                     |                                                                                                                                                    ggggCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAggg                                                                                                                                                     >  4:189713/1‑149 (MQ=255)         ggATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                                             <  5:161445/149‑1 (MQ=255)         ggATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACAGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGACGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                                             >  8:210872/1‑149 (MQ=255)          gATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                                             >  7:17070/1‑148 (MQ=255)                            ggCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑gg                                                                                                                         <  2:148552/149‑1 (MQ=255)                             gCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑Gga                                                                                                                        <  1:324798/149‑1 (MQ=255)                               aTCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCcgc‑g                                                                                                                          >  7:294188/1‑145 (MQ=255)                                  gTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCg                                                                                                                   <  3:189713/149‑1 (MQ=255)                                        tctcGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATc                                                                                                                    >  1:114881/1‑142 (MQ=255)                                        tctcGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATc                                                                                                                    <  2:114881/142‑1 (MQ=255)                                          tcGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAgcgc                                                                                                              <  6:72166/146‑1 (MQ=255)                                             cgTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTACCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGccc                                                                                                         >  6:185092/1‑148 (MQ=255)                                                      gcaagtacggcatgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggttgcgtttgggcggggtGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAAc                                                                                               <  5:338042‑M1/54‑1 (MQ=255)                                                      ccGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAAc                                                                                               <  8:17070/149‑1 (MQ=255)                                                         tCATAAAACTGTGTGTTGCCAGCGGTGTACCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTc                                                                                            <  5:185092/149‑1 (MQ=255)                                                                 atgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggttgcgtttgggcggggtGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGaa                                                                                    >  1:80376‑M1/85‑149 (MQ=255)                                                                    agccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggttgcgtttgggcggggtGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCTAaca                                                                                  >  6:338042‑M1/82‑148 (MQ=255)                                                                                                            gggtttgggtttGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGGGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCa                                          >  2:94454/1‑148 (MQ=255)                                                                                                             ggtttgggtttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGGGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCaaa                                        <  1:94454/149‑1 (MQ=255)                                                                                                               tttgggtttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACGCCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAg                                              >  3:68612/1‑141 (MQ=255)                                                                                                               tttgggtttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACGCCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAg                                              <  4:68612/141‑1 (MQ=255)                                                                                                                   ggtttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCaa                                  >  7:46329/1‑149 (MQ=255)                                                                                                                     tttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAAtc                                <  7:210872/149‑1 (MQ=255)                                                                                                                     tttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAAt                                 >  2:270584/1‑148 (MQ=255)                                                                                                                                 ttGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTCTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTc                    >  1:196371/1‑149 (MQ=255)                                                                                                                                     gTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGGTGAACGCGCGCCGCCCAAACAAAACCCTCAAGGCGAACCCCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCGGGTCCt                  >  1:248058/1‑148 (MQ=255)                                                                                                                                     gTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCCGCCCAAACATCAATCCTCCGCCGGGTCCtaa                >  1:240797/1‑147 (MQ=255)                                                                                                                                     gTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCa                >  8:16833/1‑149 (MQ=255)                                                                                                                                      ttAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCAc               >  5:133833/1‑149 (MQ=255)                                                                                                                                       tAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCAcc              >  7:303573/1‑149 (MQ=255)                                                                                                                                                gaAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCACCGCCCTggcg     >  8:176928/1‑149 (MQ=255)                                                                                                                                                   gggTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCACCGCCCTGGCGGCt  >  2:178637/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                    GGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGC‑GGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACACCCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTCCTCACCGCCCTGGCGGCT  >  NC_002947/4963623‑4963917

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.